War in Somalia (2006–2009)

Ethiopian invasion of Somalia
Part of the Ethiopian–Somali conflict and the Somali Civil War
An Ethiopian T-55 tank advances on Mogadishu (December 2006)
Date 17 June 2006[12] – 30 January 2009 (2 years, 7 months, 1 week and 1 day) Location Southern and Central Somalia Result Islamist insurgent victory,[13][14] see Consequences Disintegration of the Islamic Courts Union government and emergence of Islamist insurgency Deployment of AMISOM (2007) Rise of Al-Shabaab[15] Escalation of Insurgency in Ogaden[16] Proliferation of Somali piracy[17][18] Insurgency recaptures majority of south/central Somalia and Mogadishu Withdrawal of ENDF from Mogadishu and majority of Somalia (2009) New phase of Somali Civil War with conflict between 'radical' and 'moderate' Islamists
Belligerents
Invasion:  Ethiopia TFG  United States[1] Supported by:  Kenya[2] Insurgency:  Ethiopia TFG  Puntland  Galmudug ASWJ[3]  United States AMISOM  Burundi[4][5]  Kenya  Malawi[6]  Nigeria[7]  Uganda[8]	Invasion: Islamic Courts Union Supported by: ONLF[9][10] Eritrea[11] Insurgency: Al-Shabaab ARS ICU loyalists Ras Kamboni Brigades Jabhatul Islamiya Muaskar Anole
Commanders and leaders
Meles Zenawi Gabre Heard Kuma Demeksa Samora Yunis Abdullahi Yusuf Ali Gedi Barre Hiiraale Adde Musa George W. Bush Barack Obama Robert Gates	Sharif Ahmed Hassan Aweys Ibrahim Addow Abdirahman Janaqow Abdilqadir Ali Omar Hassan al-Turki Aden Ayrow † Ahmed Godane Mukhtar Robow
Strength
Ethiopia: 50,000–60,000[19][20][21] TFG: 10,000 soldiers[22] AMISOM: 5,250 soldiers US Forces: Unknown	ICU: 4,000 (2006)[23] Al-Shabaab: 2,000 (2008)[24] 3,000 (2009)[25] Foreign fighters: Several hundred [26]
Casualties and losses
Ethiopia: Unknown, see Casualties TFG: Unknown 15,000 deserted[27] AMISOM: Unknown, see Casualties	6,000–8,000 killed[28] 7,000 wounded (Ethiopian claim)[29][30]
Civilian casualties: 16,210–20,000 killed [31][32] Over 1 million displaced (Nov. 2007)[33] (see § Casualties and human rights violations)

The Ethiopian invasion of Somalia, also known as the Ethiopian occupation of Somalia^[34] or the Ethiopian intervention in the Somali Civil War, was an armed conflict that lasted from late 2006 to early 2009. It began when military forces from Ethiopia, supported by the United States, invaded Somalia to depose the Islamic Courts Union (ICU) and install the Transitional Federal Government (TFG). The conflict continued after the invasion when an anti-Ethiopian insurgency emerged and rapidly escalated. During 2007 and 2008, the insurgency recaptured the majority of territory lost by the ICU.

Ethiopian military involvement began in response to the rising power of the Islamic Courts Union, which operated as the de facto government in the majority of southern Somalia by late 2006. In order to reinforce the weak Ethiopian backed TFG, troops from the Ethiopian National Defence Force (ENDF) began deploying into Somalia during June 2006. Six months later during December 2006 the combined ENDF/TFG coalition, alongside a covert US military contingent, launched a full-scale invasion to topple the Islamic Courts. The ICU's organizational structure disintegrated, ENDF/TFG forces entered Mogadishu in the last days of December. In early 2007 an insurgency began, centered on a loose coalition of Islamic Courts loyalists, volunteers, clan militias, and various Islamist factions, of which Al-Shabaab eventually assumed a pivotal role. In the same period, the African Union (AU) established the AMISOM peacekeeping operation, sending thousands of troops to Somalia to bolster the besieged TFG and ENDF. The Alliance for the Re-liberation of Somalia (ARS), the successor to the ICU, further incited Islamist rebels and participated in the fighting.

Over the following two years, the ENDF, the TFG and AMISOM, became entrenched in a protracted struggle against an escalating insurgency, leading to the displacement of nearly one million inhabitants from Mogadishu.^[35][36] Piracy of the coast of Somalia, which had been previously suppressed by the ICU, greatly proliferated.^[17] By the end of 2007, ENDF troops were bogged down and facing a multi front war with no prospect of victory. While Mogadishu witnessed fierce fighting, insurgents launched offensives across southern and central Somalia in late 2007 and 2008, regaining territory previously lost by the ICU. During 2008, Al-Shabaab started taking control of significant tracts of southern Somalia and began governing territory for the first time.^[37] The Ethiopian military occupation faltered,^[38] and by Autumn 2008, more than 80% of the territory the ICU lost during the invasion was recaptured by the insurgency.^[39] By November, the insurgency had effectively won.^[40] By December 2008, the TFG only had control over parts of Mogadishu and the city of Baidoa.^[41] That month TFG President Abdullahi Yusuf resigned after stating that he had lost control of Somalia to the insurgency.^[42] The Ethiopian backed government remained weak and highly fragmented, as its fragility remained unchanged from its state prior to the invasion.^[38]

At the end of 2008, the ARS was assimilated into the TFG in an attempt to halt the growing insurgency and form a representative democratic government.^[43][34] During January 2009, former head of the Islamic Courts Union Sharif Sheikh Ahmed was elected president of Somalia. That same month, declaring victory and claiming to have eradicated the 'Islamist threat', the ENDF withdrew from Mogadishu and Somalia, ending the two year occupation.^[34] By the time of the withdrawal, effectively all territory lost by the ICU during the full scale December 2006 and January 2007 invasion had been recovered by Islamist insurgents,^[44] including much of Mogadishu.^[45][34] Years into the present phase of the civil war, Ethiopia became re-involved and joined AMISOM in 2014 in order to counter the growth of Al-Shabaab.

Disputes between Somalia and Ethiopia over the Ogaden (now the Somali Region) date to Ethiopian Emperor Menelik's expansions into Somali lands during the 1890s, initiating the process of incorporation into the Ethiopian Empire. Several decades of growing tension and conflict culminated in the 1977–1978 War where Somalia launched an invasion to assist the Western Somali Liberation Front in the hope of incorporating the Ogaden into a unitary 'Greater Somalia'. Major conflicts between Ethiopia and Somalia since the latter's independence in 1960 include:

• 1964 Border War
• 1977–1978 Ogaden War
• 1982 Border War
• 1996–2003 border incursions during the Somali Civil War^[46][47][48]

In 2000, the first successful attempt to form a government since the collapse of Somalia's central authority in 1991 led to the creation of the Transitional National Government (TNG). Ethiopia opposed the TNG, fearing that Somali reunification would reignite claims on the Ogaden region. In response, Ethiopia supported groups in Somalia that resisted the TNG and actively sponsored the formation of opposition alliances to preserve its strategic interests.^[49] After the 9/11 attacks, the Ethiopian government labelled TNG leaders as Islamic extremists who were pro-Bin Laden.^[50]

The TNG later failed, and was instead replaced by the rise of Islamic Courts Union (ICU) in the years following, which occurred concurrently with the escalating insurgency in the Ogaden waged by the Ogaden National Liberation Front.^[51] A strong Somali state not dependent on Addis Ababa was perceived as a security threat,^[52][11] and consequently the Ethiopian government heavily backed the formation of the Transitional Federal Government (TFG) in 2004 and the presidency of Abdullahi Yusuf on the grounds that he would give up Somalia's long standing claim to the Ogaden.^[53] Yusuf was previously a member of an Ethiopian-backed coalition of warlords that had undermined the TNG,^[54] and decades prior to that had led Somali rebels who assisted invading Ethiopian troops during the 1982 Ethiopian–Somali war.^[55] The Ogaden was at the heart of the dispute between the ICU and Ethiopian governments. Following their ascent to power, senior ICU officials accused Ethiopia of mistreating the Somalis under its rule and declared that the region could not be forgotten, as it was tied to them by blood.^[56]

Even before the beginning of the war, there have been significant assertions and accusations of the use of disinformation and propaganda tactics by various parties to shape the causes and course of the conflict. Eastern African countries and international observers had feared the Ethiopian offensive may lead to a regional war, involving Eritrea, which has a complex relationship with Ethiopia and who Ethiopia claimed to have been a supporter of the ICU.^[57] The Eritrean government denied sending troops,^[58] no evidence exists to support claims of Eritrean troops in Somalia,^[59] and no Eritrean presence was discovered in the country during the war.^[60] Ethiopia also denied deploying troops in Somalia despite being widely reported.^[61] The TFG also denied the presence of Ethiopian forces in Somalia,^[62] even after Ethiopia had admitted its troops were inside Somalia.^[63]

The majority of Somali society, including much of the newly formed Transitional Federal Government, deeply opposed any foreign military intervention on Somali soil.^[64][65] With significant Ethiopian support, Abdullahi Yusuf was elected as the TFG president, and, under Ethiopian direction, he appointed a prime minister with connections to then-Ethiopian Prime Minister Meles Zenawi. These close connections to Addis Ababa were a driving force behind the invasion and provoked the ICU into later adopting a bellicose stance.^[66] It was during a 2004 visit to the Ethiopian capital Addis Ababa, when President Yusuf first requested 20,000 Ethiopian troops enter Somalia to back his government.^[67] A 2005 African Union fact finding mission to Somalia found that the overwhelming majority of Somalis rejected troops from neighboring states entering the country.^[60] Despite significant opposition within the TFG parliament,^[68] President Yusuf made the unpopular decision to invite Ethiopian troops to prop up his administration.^[41] As an institution, the TFG did not consent to or approve of the Ethiopian military intervention. No parliamentary approval was given for a decision openly opposed by a significant portion of the government.^[60]

During mid-2006, the Islamic Courts Union (ICU) decisively defeated a CIA backed alliance of Somali warlords and became the first organization since the collapse of the state to control Mogadishu,^[59] which propelled the ICU on the national stage for the first time.^[69] British television station Channel 4 acquired a leaked document detailing a confidential meeting between senior American and Ethiopian officials in Addis Ababa six months prior to the full scale December 2006 invasion. Participants deliberated on various scenarios, with the 'worst-case scenario' being the potential takeover of Somalia by the Islamic Courts Union. The documents revealed that the US found the prospect unacceptable and would back Ethiopia in the event of an ICU takeover. Journalist Jon Snow reported that during the meeting ‘the blueprint for a very American supported Ethiopian invasion of Somalia was hatched’. No Somali officials were involved in the discussions.^[60] According to Ted Dagne, an Africa specialist for the US Congressional Research Service, the Islamic Courts had committed no act or provocation to initiate the Ethiopian invasion.^[67] American historian William R. Polk observes that the invasion had been unprovoked.^[70]

The Ethiopian invasion began with the dispatch of several thousand Ethiopian National Defence Force (ENDF) troops around Baidoa city located in Bay region, far inside Somalia, in order to build a bridgehead for a future large scale military operation.^[71] On 16 June 2006, Shabeelle Media Network reported that sources in Ethiopia's Somali Region had witnessed a massing of ENDF 'heavy armoured vehicles' along many of the towns on the Ethiopian–Somali border^[72] and on the following day the first Ethiopian troops moved into Somali territory. Local Somali officials and residents in Gedo region reported about 50 ENDF armored vehicles had passed through the border town of Dolow and pushed 50 km inland near the town of Luuq.^[12][73] ICU head Sheik Sharif Ahmed claimed that 300 ENDF had entered the country through the border town of Dolow in Gedo region and that Ethiopian forces had also been probing Somali border towns. He went on to threaten to fight Ethiopian troops if they continued intervening and further stated, “We want the whole world to know what's going on. The United States is encouraging Ethiopia to take over the area. Ethiopia has crossed our borders and are heading for us.”^[74][73] The Ethiopian government denied the deployment of its forces in Somalia and countered that the ICU was marching towards its borders.^[61][75][12] The TFG vehemently denied accusations of an Ethiopian military deployment and claimed that the ICU was fabricating a pretext to assault its capital in Baidoa. Additionally, the TFG arrested several reporters from Shabelle Media Network and imposed restrictions on their radio station after they reported on the ENDF incursion.^[76][77] On 19 June 2006 the ICU called for the international community to pressure Ethiopian forces to withdraw from Somalia.^[78]

Another significant deployment of Ethiopian troops occurred on July 20, 2006, when they moved into Somalia. Local witnesses reported 20 to 25 armored vehicles crossing the border. The Ethiopian government once again denied the presence of any troops inside Somalia. Reuters estimated that roughly 5,000 ENDF troops had built up inside Somalia by this point.^[79] On 23 July 2006, the Ogaden National Liberation Front announced that they had shot down an Ethiopian military helicopter heading for Somalia and publicly warned that Ethiopian military movements in the Ogaden pointed towards an imminent large scale operation directed at southern Somalia.^[80] That same day, another ENDF contingent crossed into Somalia, leading to the collapse of the Khartoum talks between the ICU and TFG. The ICU walked out of talks with the TFG after 200 ENDF troops seized Wajid, taking control of the airport and landing two helicopters. Abdirahman Janaqow, the deputy leader of the ICU executive council, announced soon after that, "The Somali government has violated the accord and allowed Ethiopian troops to enter Somali soil." The TFG claimed that no Ethiopians were in Somalia and that only their troops were in Wajid.^[81] BBC News confirmed reports of Ethiopian troops in Wajid during interviews with local residents and aid workers. Following the towns seizure, the ICU pledged to wage a holy war to drive out the ENDF from Somalia.^[82]

The escalation of Ethiopian troop deployments into Somalia during July 2006 began raising fears of a possible 'all-out war' in the Horn of Africa,^[83] though the 2006 Lebanon War overshadowed news reports of several thousand troops entering Somalia.^[84] During late July 2006, over a dozen TFG parliamentarians resigned in protest of the Ethiopian invasion.^[85] By August 2006 the TFG was mired in an severe internal crisis and at risk of collapse.^[86] In late July, Eritrea called for the withdrawal of the ENDF in Somalia to prevent a regional war^[85] and the following month accused Ethiopia of plotting a US supported invasion with the aim of destroying the "realization of a unified Somalia”^[11]

By September, at least 7,000 Ethiopian troops were in Somalia and had begun arming warlords defeated by the ICU.^[87] The first clash between ICU and Ethiopian National Defence Forces occurred on 9 October 2006. TFG forces, backed by the Ethiopian troops, attacked the ICU positions at the town of Burhakaba, forcing the courts to retreat.^[88] AFP reported that residents in Baidoa had witnessed a large column of at least 72 armed ENDF vehicles and troops transports depart from city before the incident.^[89] Meles Zenawis government denied that the ENDF was in Somalia, or that they had participated in the incident, but local residents in Burhakaba confirmed the presence of large numbers of ENDF in the town. The Economist reported that the Ethiopian military incursion had set off a fierce reaction even among the most moderate of the ICU, and a recruitment mobilization began in order to raise a force to take back Burhakaba.^[90] The ICU claimed that the ENDF had also sent another large deployment across the Somali border. Following the battle, Sharif Ahmed announced "This is clear aggression...Our forces will face them soon if they do not retreat from Somali territories" and declared Jihad against Ethiopian military forces.^[91]

In November 2006, the situation significantly escalated with the extensive mobilization and strategic positioning of ENDF, TFG and ICU forces in southern Somalia. Local residents reported large numbers of ICU forces deploying to Burhakaba. The distance between the opposing forces on the front line was now less than 20 km apart. On 26 and 28 November the courts claimed to have ambushed two ENDF convoys near Baidoa.^[92] On 29 November, the courts claimed Ethiopian forces had shelled Bandiradley. The next day ICU forces ambushed an ENDF convoy outside of Baidoa.^[93]

That month, the Ogaden National Liberation Front (ONLF) declared that it would not allow the Ogaden region to be used as a launching pad to invade Somalia, and warned that it would resist any attempts to do so.^[94] The Ethiopian military campaign against the ONLF, along with widespread atrocities committed against civilians associated with it, drove hundreds of men (thousands according to some estimates) from the Ogaden to Mogadishu in order to answer the ICU's call to arms against the invasion.^[95] Several hundred men from Somaliland also joined the Courts militia, including high-ranking military officers, while ICU supporters in Puntland primarily provided financial and logistical aid.^[96][97] ICU officials reported around 100 fighters from Puntland had defected to join their ranks during mid-November.^[98]

The most significant event to immediately prelude the war was the passing of United Nations Security Council 1725 on 6 December 2006.^[59][99] The resolution called for the deployment of foreign troops and the lifting of the arms embargo. The Islamic Courts and Muslim Somali leaders had in the months prior to the resolution firmly rejected the deployment of any international military forces in Somalia as an act of war.^[59] Top leaders of the TFG had previously requested that 20,000 foreign troops, including Ethiopian forces be deployed to Somalia, though the move was opposed by many parliamentarians.^[87] While the resolution explicitly dictated no neighbouring states would be permitted to participate, Ethiopia had already breached a prior UN resolution by deploying thousands of troops into Somalia. The resolution was widely viewed by the Courts as the UN Security Council unjustly legitimizing an Ethiopian invasion, considering the UNSCR had refused to make any commentary or statement on the troops already deployed inside of Somalia.^[59]

Several weeks before the resolution was passed, a UN report had alleged that the ICU had fought in the Lebanon War and given Iran access the uranium deposits within Somalia. Observers drew parallels these allegations and the accusations made by the United States during the lead up to the 2003 invasion of Iraq.^[100] Herman Cohen, the US Assistant Secretary for African Affairs, noted the US decision to back resolution had been influenced by false Ethiopian intelligence. The ICU viewed the passing of UNSCR 1725 as effectively a declaration of war, a UN endorsement of the Ethiopian invasion^[59] and as evidence of an international conspiracy against the union.^[101] Al-Shabaab, one of the militia within the military wing of the ICU, increasingly radicalized in response to the Ethiopian incursion.^[102] The United States Assistant Secretary of State issued a statement openly accusing the ICU leadership of being members of Al-Qaeda.^[103] On 8 December 2006, two days after UNSCR 1725 was passed, the ICU reported being ambushed by Ethiopian troops, sparking an artillery duel which escalated into a two day battle between ENDF/TFG and ICU forces.^[104]

Forces involved are difficult to calculate because of many factors, including lack of formal organization or record-keeping, and claims marred by disinformation. For months leading up to the war, Ethiopia maintained it had only a few hundred advisors in the country, yet independent reports indicated far more troops.

Approximately 50,000 to 60,000 Ethiopian National Defence Force (ENDF) troops backed by tanks, helicopter gunships and jets had been involved in the offensive against the Islamic Courts Union during December 2006.^{[105][20][106]} At the outbreak of the war, the strength of the ENDF, the largest military in sub-Saharan Africa with one of the continent's strongest air forces, contrasted sharply with the ICU, which lacked conventional forces.^[67] Colonel Gabre Heard, a senior ENDF officer and Tigray Peoples Liberation Front (TPLF) official, was commander-in-chief of Ethiopian troops during the invasion.^[107] The TFG claimed only 12,000 to 15,000 Ethiopian troops had been deployed to Somalia,^[108] while the Ethiopian government claimed it had only 4,000.^[108] During 2007 military experts estimated 50,000 Ethiopian troops were occupying parts of Somalia.^[109][21] Other estimates placed the figure at 40,000.^[110][111] The Ethiopian backed TFG possessed approximately 6,000 soldiers.^[112] During the invasion phase of the war, US Special Forces, CIA paramilitary units, and Marine units, supported by American AC-130s and helicopter gunships, directly intervened in support of the ENDF.^[105][113] The US Bush administration doubted Ethiopia's ability to effectively use the new equipment it had provided for the invasion. As a result, it decided to involve US Special Forces and CIA agents in the campaign.^[70]

Reuters reported 3,000 to 4,000 troops fought under the ICU at its height.^[114] The insurgency that followed the collapse of the ICU was composed of numerous different groups and factions, making it difficult to determine who was responsibility for a variety of attacks and incidents, though Al-Shabaab ultimately became the most powerful and active element.^[115] The TFGs prime minister Ali Gedi claimed that 8,000 foreign fighters were fighting for the ICU during the invasion,^[116] although the African Union reported Somalia had only attracted 'several hundred' foreign fighters since the formation of the ICU to mid-2007.^[117] In 2008 there were reportedly around 100 foreign fighters in Somalia.^[118]

Prior to the invasion significant military intelligence and logistics support was offered by the United States military to the ENDF. The Pentagon provided access to aerial reconnaissance and satellite surveillance of ICU military positions across Somalia. The Americans also played a substantial role in sponsoring the invasion, even covering expenses such as fuel and spare parts for Ethiopian troops.^[59] Pentagon officials and intelligence analysts reported that the invasion had been planned during the summer of 2006 and that US special forces were on the ground before the Ethiopians had intervened.^[119] Reuters reported American and British Special Forces, along with US-hired mercenaries, had been laying the ground work for the invasion within and outside Somalia since late 2005.^[59]

Before the full-scale invasion began, more than 10,000 ENDF troops had been built up in and around Baidoa over the months since the first incursion in June 2006. Much of Bay and Bakool region had already been occupied by Ethiopian troops.^[59] Flooding that had taken place across Somalia since August 2006 delayed troop movements. By December, the land around strategic towns had largely dried.^[120] On 13 December, the ICU claimed 30,000 Ethiopian troops were deployed inside of Somalia.^[121] The following day, local residents and ICU officials in the Hiran region reported a large scale deployment of ENDF troops across the border over a 48-hour period in the regions environs.^[122]

As tensions escalated, different members within the ICU made unilateral statements regarding the response to the Ethiopian invasion without consulting the ICU leadership.^[59][101] On 13 December 2006, two high-ranking officials in the ICU's military wing, Yusuf Indhacade and his deputy Mukthar Robow, gave Ethiopian troops deployed in Somalia a seven-day ultimatum to withdraw from the country or face expulsion.^[101] The Courts were divided over whether or not to forcibly eject invading Ethiopian troops, and the European Union began last minute diplomatic efforts to halt the outbreak of war, resulting in contradictory statements from various ICU leaders. Sharif Sheikh Ahmed and Hassan Dahir Aweys, both adopted conciliatory stances as a result, but the sharp rise in tensions had empowered the Courts 'Hawks' who viewed the growing Ethiopian military forces and the passing of UNSCR 1725 as proof of an international conspiracy against the ICU.^[101] Statements from the international actors were contradictory as the African Union had at first endorsed the Ethiopian invasion, only to quickly retract the statement two days later.^[59]

The first battle of the full-scale invasion began soon after the withdrawal ultimatum expired on 19 December 2006. Fighting broke out that evening when two reconnaissance teams clashed at around the settlement of Idaale, 60 kilometres south of Baidoa. Both sides blamed each other for initiating the fighting.^[123] ICU fighters, many of who were university students, attacked Ethiopian positions in Daynunay, 20 kilometres east of Baidoa as heavy fighting and artillery shelling broke out on several different front lines.^[124][125] Some of the most intense fighting of the war took place between the ICU and ENDF/TFG around the towns of Daynuunay and Idaale. Heavy weaponry was utilized in a large scale face-to-face confrontation primarily between the Islamic Courts and Ethiopian forces.^[126] Though BBC journalists in the country at the time reported huge ENDF armor columns around Baidoa, the Ethiopian government denied its troops were in Somalia.^[123] Accounts from opposing camps noted heavy casualties from the fighting, with many bodies littering the battlefields, along with a massive influx of reinforcements.^[127] From the start of the operation American special forces were covertly present.^[128] Daveed Gartenstein reported that between 19 and 21 December, the ICU and Ethiopian troops had faced off in open battle in three encounters. Despite the material and numerical odds against the Islamic Courts, they had prevailed in the three battles. These early victories led western intelligence officials and analysts to fear that the ICU would overrun the city.^[129] US intelligence sources reported that in the initial days of the conflict, the ICU effectively utilized tactics against ENDF tanks that mirrored those employed by Hezbollah against the IDF months prior during the Lebanon War.^[130] ICU forces managed to advance only eight kilometres away from Baidoa, but lacking effective counters to Ethiopian artillery and armor superiority, the lightly armed fighters who charged the Ethiopian front line suffered high casualty rates.^[131] 50,000 Ethiopian troops took part in the invasion.^[132]

American gunships, including helicopters and the AC-130, flew out of Dire Dawa and Diego Garcia to provide air support for Ethiopian troops.^{[133][105][134]} The USS Dwight D. Eisenhower carrier battlegroup was dispatched to the Somali coast to provide further air support and aerial surveillance.^[135] US Special forces and CIA paramilitary units also participated.^{[136][132][113]} The participation of the US ground and air forces provided the ENDF with massive military superiority over the ICU. Ali Gedi, then prime minister of the TFG and a participant in planning for the invasion noted that, “The Ethiopians were not able to come in without the support of the US Government...American air forces were supporting us."^[137] US operations during the invasion took place in a media vacuum, with no images or footage appearing of American forces.^[135] American planes and helicopters that struck ICU targets during December 2006 had their markings obscured.^[128] In an interview with Al-Jazeera, head of the Islamic Courts Sharif Sheikh Ahmed later reported that after achieving a string of battlefield victories, ICU troops had come under unexpected bombardment from US aircraft.^[138]

As the ENDF advanced towards Mogadishu, they encountered fierce resistance in Bay region. Large battles took place around the settlements of Diinsoor and Daynuunay, where the Courts pushed back the Ethiopian army and overran a military camp. One of the most notable battles occurred at Idaale, where the ICU inflicted heavy losses on the invading forces.^[139] The ICU's Al-Shabaab youth militia were also present for the battle. The ENDF were drawn out of their positions into battle when fighters attacked an Ethiopian position and then feinted a retreat. The Ethiopians pursued with a large contingent of troops and were soon ambushed by hundreds of fighters, initiating a massive battle between the ENDF and ICU that would last several days.^[131] After two days of large scale clashes, Sheik Hassan Dahir Aweys announced Somalia was in a state of war;^[140] but clarified that the ICU considered itself at war with Ethiopia and not the TFG.^[141] By the end of 22 December, both sides claimed to have killed hundreds of each other's troops.^[141] The Battle of Bandiradley began on December 23, 2006, when Ethiopian and Puntland forces, along with Abdi Qeybdid of the Somali Warlord Alliance, fought ICU militias defending Bandiradley.^[142] With the defensive capabilities of the Courts overextended and overwhelmed,^[101] the tide turned against them on the fourth day of the war as the Ethiopian army continued deploying their superior military hardware.^[131] The ICU positions at Bandiradley in central Somalia was the first to fracture, leaving a significant gap in the front line.^[101] No ICU reserves were available to deploy in the exposed northern flank, enabling the Ethiopian military to begin a blitzkrieg.^[143]

As ENDF convoys drove through the Ogaden region to reach the front line, the ONLF began attacking those attempting to join the war. The ONLF announced that on 23 December, in-line with their policy of resisting attacks on Somalia, they had attacked a convoy consisting of twenty armored vehicles and several trucks driving through Korahe Zone. The ONLF reported that after inflicting casualties and destroying four vehicles, the convoy had to retreat and abandon its planned operations in Somalia.^[9]

On 24 December, the ICU reported to be around 10 km away from Baidoa. The Courts reported destroying several ENDF tanks during a battle at Daynuunay.^[144] The Ethiopian Air Force began carrying out airstrikes on the city of Beledweyne and other towns in central Somalia.^[145][146] After Beledweyne had become the target of airstrikes, the Courts decided to withdraw from the city.^[139] The Ethiopian Air Force bombed Mogadishu airport, killing several people in an airstrike.^[139][147] That same day Ethiopia admitted its troops were fighting the ICU for the first time, after stating earlier in the week it had only sent several hundred military advisors to Baidoa.^[148] Ethiopian PM Meles Zenawi claimed in a televised address that day that he had been compelled to go to war in order to protect national sovereignty.^[145] After Ethiopia admitted its troops were inside Somalia, the TFG continued to publicly deny the presence of ENDF troops, further undermining its credibility.^[59] Heavy fighting, including reports of airstrikes and shelling, erupted in the border areas,^[148] with the ICU claiming to have shot down an ENDF helicopter gunship.^[149]

The ICU forces, composed primarily of lightly armed youth were heavily outnumbered, outgunned and exhausted. In the ensuing blitzkrieg, the most inexperienced Islamist fighters were badly mauled. The majority of ICU losses did not include professional fighters, but the many untrained ICU volunteers from various Somali clans. Fighting against forces with complete armor and air supremacy the ICU front line began to collapse in the face of conventional warfare.^{[101][131][143]} Defending Islamist forces withdrew from Beledweyne concurrent to Ethiopian airstrikes against the Mogadishu and Baledogle airports.^[150]

After fighting for nine days in open battle with the Ethiopian army, the courts began to pull back from the front line around Baidoa, Idaale, Dinsoor, Daynuunay and Burhakaba. Their forces withdrew and gathered around the town of Jowhar, 90 km north of Mogadishu.^[139] Analysts reported that the withdrawal had occurred simultaneously across the ICU's entire front, indicating a deliberate coordinated change in strategy rather than a chaotic rout. According to David Shinn, US ambassador to Ethiopia, the ICU had recognized their vulnerability to sustained attacks from Ethiopian air and armor superiority in conventional warfare and had opted for a transition to insurgent tactics. Following the withdrawal, ICU head Sharif Ahmed declared that the conflict had entered 'a new phase.'^[151] On 27 December, the leaders of the Islamic Courts Union, including Sheikh Hassan Dahir Aweys, Sheikh Sharif Sheikh Ahmed and Sheikh Abdirahman Janaqow resigned, and the Courts government effectively dissolved,^[152] though Sharif declared that the Courts forces were still united.^[153] The ICU had evacuated many towns without fighting as ENDF/TFG forces advanced on Mogadishu^[154] That same day the African Union, supported by the Arab League and the IGAD, called for Ethiopia to withdraw from Somalia immediately.^[155]

As Ethiopian troops advanced on Mogadishu, they were accompanied by the warlords who the ICU had defeated in mid-2006. The Ethiopians allowed the warlords to regain control over the fiefdoms they had previously lost to the courts.^[59] The ICU declared it was withdrawing from the capital to prevent a bloodbath,^[153] and on 28 December, Ethiopian and government forces marched into the city of Mogadishu unopposed. After the Fall of Mogadishu to the Ethiopian and TFG forces on December 28, the Islamists retreated from the Juba River valley. Heavy artillery fire was reported on December 31 in the Battle of Jilib and the ICU withdrew by midnight, leaving Kismayo, without a fight and retreating towards the Kenyan border. The ICU declared it would not surrender to the Ethiopians and vowed it would continue it's armed struggle.^[156] Demoralized, many fighters returned to their homes.^[143] Despite their desperate position, the Courts remained defiant declaring in a statement, "If the world thinks we are dead, they should know we are alive and will continue the jihad"^[157]

Military events in January 2007 focused on the southern section of Somalia, primarily the withdrawal of the ICU from Kismayo following the Battle of Jilib, and their pursuit using Ethiopian and American airstrikes until a final stand during the Battle of Ras Kamboni. US AC-130 gunships covertly flying out of Ethiopia pounded retreating ICU convoys,^[134][158] and Kenyan troops assisted in capturing retreating ICU forces.^[159] Local residents in southern Somalia reported Kenyan Defence Forces (KDF) convoys driving over the border, and residents in the Afmadow district of southern Somalia reported witnessing AC-130's pursuing and killing ICU troops.^[160] American airstrikes focused on decapitating the ICU leadership, in one instance killing Sheikh Abdullahi Nahar, a popular leader of the movement.^[161] Cruise missiles were fired at ICU positions on 8 January 2007.^[162] American forces reportedly killed hundreds of Somali fighters and civilians in a 'killing zone' between the Kenyan border, the Indian Ocean and advancing US backed Ethiopian troops.^[163] American air power was used against villages in southern Somalia, resulting in significant civilian casualties and displacement. In one attack seventy-three nomadic herders and their livestock were killed in a US air strike.^[164][160] Somali elders and residents in the town of Dhobley estimated 100 civilians had been killed in US/ENDF airstrikes.^[165] In another, US aircraft bombed a wedding ceremony.^[166] After American involvement in the invasion became public knowledge, the Ethiopian government halted US AC-130 attacks from its military bases.^[158]

The United States admitted to conducting a strike against targets that they claimed were suspected al-Qaeda operatives. An admission to a second air attack was made later in January.^[167] Initially, the US claimed that it had successfully targeted Al-Qaeda operatives responsible for the 1998 embassy bombings, but later retroactively downgraded those killed to being 'associates with terrorists'.^[103] Al-Shabaab militia suffered several losses in this period, resulting in a temporary loss of command and control over the organization.^[168] The Pentagon's announcement of air attacks in Somalia during the Ethiopian offensive confirmed the belief of many analysts that the US was involved in the invasion.^[164][160] United Nations Secretary-General Ban Ki-moon publicly expressed concern that the American attacks would escalate the conflict.^[158]

At the start of January, the Ethiopian government claimed it would withdraw "within a few weeks"^[169] The TFG announced that the rivaling Islamic forces had been defeated and that no further major fighting was expected to take place.^[170] After the Fall of Mogadishu, the security situation began to rapidly deteriorate and warlords who had been removed by the Islamic Courts began to reassert themselves.^[171][172] On 7 January, anti-Ethiopian protests broke out in Mogadishu, with hundreds of residents hurling stones and shouting threats towards ENDF troops. Ethiopian troops opened fire on the crowd after stones struck their patrol car, resulting in the death of two; including a 13-year boy. That same night a former ICU official was also assassinated in the city by gunmen.^[173][174] On 13 January, the TFG imposed martial law. The directives, which included a ban on public meetings, attempts to organize political campaigns and major media outlets, was enforced by Ethiopian troops. Warlord militia checkpoints began reappearing on Mogadishu roads and insecurity started once again returning to the city.^[164]

Several high ranking figures of the TFG, including ex-speaker Sharif Hassan Sheikh Aden, were fired for calling for a compromise with the ICU.^[175] Members of the TFG present in Nairobi were threatened with expulsion by Kenyan foreign minister Raphael Tuju after they publicly called for the withdrawal of Ethiopian troops.^[176]

On 19 January, insurgents in Mogadishu launched an assault on the ENDF/TFG held Villa Somalia. The ICU claimed responsibility for the attack, declaring it as part of a "new uprising".^[177][178] The following day an ENDF convoy in the city came under ambush. Residents reported that the Ethiopian troops had responded by firing into crowds indiscriminately.^[177][179] The incidents began sparking concern of an upstart Islamist insurgency.^[180] Mogadishu was divided into two segments, one controlled by the ENDF/TFG and the other by emerging resistance movements.^[181] The TFG proved to be incapable of controlling Mogadishu,^[182] or of surviving on its own without Ethiopian troops.^[67] Most of the population of the city opposed the TFG and perceived it to be a puppet government.^[182] The military occupation was marked by indiscriminate violence towards civilians by the Ethiopian army and TFG. Homes were raided in search of ICU loyalists, with lootings, beatings and executions of suspected collaborators commonplace.^[183]

The African Union's involvement in the war came at the insistence of both Ethiopia and the United States for the organization to take over the role of ‘regime changer’. In effect, the newly planned AU military operation in Somalia was an attempt to legitimize the Ethiopian invasion and TFG. According to Cocodia, "AMISOM was more a tool for regime change than it was a peace operation."^[184] Within the African Union there was significant skepticism about the legitimacy of the Ethiopian military occupation.^[185] On 20 February 2007, the United Nations granted authorization for the deployment of a peacekeeping mission by the African Union, known as the African Union Mission to Somalia (AMISOM). The mission's stated primary objective was to provide support for a national reconciliation congress in Somalia.^[186] AMISOM's deployment served as an exit strategy for Ethiopian troops, as their presence was inflaming an insurgency.^[187]

From 2007 to 2009, AMISOM was predominantly composed of troops from Uganda, Burundi, and a few Kenyans. During 2007, the operation relied heavily on Ugandan Peoples Defence Forces (UPDF), as Uganda played a crucial role in offering support to the initiation of the mission. By the end of the year, Burundian troops also joined the effort. AMISOM's initial mandate did not permit the use of offensive force, resulting in limited involvement in the conflict between Ethiopian forces and the insurgency. This dynamic led to growing tensions between AMISOM and the ENDF, exacerbated by a lack of transparency from Ethiopia regarding its objectives within Somalia.^[188] The European Union was reportedly 'exceptionally unhappy' about the heavy US support for the December invasion, and held back funds for the newly created AMISOM mission for several months.^[59]

Days before AMISOM deployed in Somalia, violence in Mogadishu began rapidly escalating.^[189] On 6 March 2007, the first African Union troops landed at Mogadishu airport alongside three military vehicles.^[190]

Early 2007 saw Somalis rally behind what was referred to as the muqawama (resistance) or kacdoon (uprising).^[71] In late February and early March 2007, insurgent attacks on ENDF/TFG forces in Mogadishu became a daily occurrence, growing in both complexity and sophistication.^[191] During March, the resistance began in earnest with units of Somali guerillas engaging in hit-and-run attacks on Ethiopian military positions in Mogadishu. The Ethiopian military response was characterized by large scale and indiscriminate artillery and aerial bombardments of civilian areas.^[39] That month Ethiopian and TFG troops began suffering mounting casualties to the insurgency.^[192] On 15 March 2007, TFG President Abdullahi Yusuf accused ICU rebels in Mogadishu of being responsible for shelling Villa Somalia with mortars moments after he arrived. In a telephone interview with Al-Sharq al-Awsat, President Yusuf declared that no ICU leadership would be allowed to partake in the national reconciliation process.^[193] In the ensuing days, insurgent activities intensified further. Between 16 and 18 March 2007, there was a rapid escalation in attacks, accompanied by an increase in mortar fire volume. A large ENDF convoy was ambushed, leading to a major battle near Mogadishu port, and a high-ranking TFG regional police commander was assassinated in Kismayo.^[194] The TFG soon began to run into increasing opposition from remnants of the Islamic Courts Union, and despite moving much of the government in January to Mogadishu, many ministers chose to remain in Baidoa.^[195]

During 2007, members of the Islamic Courts led the resistance to the occupation, attracting significant support from Somalis in the Banaadir region and from Somalis across the world.^[181] Al-Shabaab did not heavily participate in the insurgency or large scale fighting for much of 2007, opting instead to carry out bombings and assassinations while further establishing itself.^[196]

By the end of March, the fighting intensified in Mogadishu and more than a thousand people, mostly civilians, were killed. ICU insurgents, Hawiye clan militia, volunteers and other Islamist groups engaged in fierce rounds of fighting in dense urban eras for several weeks during March and April against ENDF/TFG forces.^[115] In a bid to crush the insurgency, Ethiopian/TFG forces besieged entire neighborhoods and initiated a campaign of mass arrests. Ethiopian troops launched major offensives in the city, utilizing large scale bombardments with rockets and artillery on Mogadishu neighborhoods deemed to be insurgent strongholds. On several occasions the ENDF also occupied and looted the city's hospitals. Ethiopian troops were primarily responsible for the large scale bombardment and significant civilian losses that occurred in the city during March and April 2007.^[197] The Ethiopians were surprised by the intensity of the resistance and began unleashing their firepower on the city in response.^[71] Human Rights Watch reported that the Ethiopian army extensively utilized BM-21 Grad rocket shelling to bombard densely populated Mogadishu neighborhoods, which the organization described as a violation of international humanitarian law.^[115]

During the fierce fighting, the Ethiopian army reportedly engaged in the carpet bombing of neighborhoods. TFG President Abdullahi Yusuf announced in a radio address that “any place from which a bullet is fired, we will bombard it, regardless of whoever is there.”^[198] The presence of Ethiopian troops reinforced the authoritarian behavior of the TFG.^[181] Time magazine reported that the battles raging in the Mogadishu at the time were 'some of the most savage fighting' the capital had ever experienced.^[199] An Ilyushin Il-76 military transport plane was struck by insurgent RPG fire on 9 March,^[200] and another Il-76 was shot down on 23 March while it was taking off from Mogadishu airport.^[201] The bodies of ENDF troops were dragged through the streets during the fighting for the city and an Ethiopian helicopter gunship was shot down by Somali fighters using portable surface-to-air missiles.^[202][203]

By April, a third of Mogadishu's buildings were in ruins along with much of the city's modest economic infrastructure.^[39] According Kenyan journalist Salim Lone, ENDF and TFG forces deliberately blockaded the delivery of urgently needed humanitarian supplies and food in an attempt to 'terrify and intimidate' civilians associated with those challenging the military occupation.^[204] The Ethiopians characterized the violence in this period as being part of a 'final push' against the rebels,^[205] but the fierce fighting in Mogadishu during March and April 2007 failed to quell the growing insurgency.^[197]

The Ogaden National Liberation Front (ONLF) issued a statement declaring its solidarity with the insurgency,^[206] and along with other armed groups in Ethiopia - escalated the insurgency in the Ogaden in response to the invasion.^[16] The Ethiopian government accused ICU fighters of fighting alongside the ONLF during the April 2007 Abole raid.^[207]

In mid-2007, as Ethiopian troops were getting mired in the insurgency, Prime Minister Meles Zenawi publicly stated that the Ethiopian government had “made a wrong political calculation” by invading Somalia. Many Mogadishu businessman and civil leaders reported that they had been unjustly labelled as being Al-Qaeda, following which they were ransacked by ENDF/TFG forces.^[208] On 3 June 2007, a truck bomb attempted to assassinate TFG prime minister Ali Mohamed Ghedi.^[209] In July 2007, the insurgency had into spread to the greater Banaadir region, Middle Shabelle, Lower Shabelle and the Jubba Valley. During August violence in Mogadishu escalated sharply. Ethiopian troops utilized tanks and heavy artillery to bombard insurgent strongholds in the capital, resulting in the worst mass exodus in the city's history.^[192] The ENDF utilized white phosphorus munitions in residential areas of the city, resulting in civilian fatalities.^[60] The escalating insurgency resulted in the deployment of an additional 10,000 Ethiopian troops in Mogadishu and its environs.^[181] During September 2007, the Alliance for the Re-liberation of Somalia (ARS) was formed. Al-Shabaab spokesman Mukhtar Robow stated that the group did not recognize and had no relationship with the ARS.^[210]

As fighting in Mogadishu escalated, ICU insurgents in southern Somalia found a window of opportunity and peacefully captured the town of Dhobley near the Kenyan border in mid October.^[211] At the end of October 2007, some of the heaviest fighting in months broke out between the ENDF and ICU insurgents in the capital when Ethiopian troops launched an offensive on ICU positions.^[212] From 8–16 November, another large scale multi-day battle occurred in Mogadishu; during which the bodies of Ethiopian troops were dragged through the city streets.^[213] By November, small pockets of Islamic Courts Union control were appearing in various places across the country.^[214] In December 2007, the ENDF withdrew from the strategic town of Guriel, which was then taken quickly over by insurgents.^[215] The Ethiopians and TFG had little public support, and Ethiopian troops rarely conducted patrols due to frequent losses to Somali insurgents.^[216]

At the end of the year, the UNHCR estimated 1,000,000 people had been displaced by the war.^[33] The United Nations reported the crisis as being the worst ever humanitarian crises in Africa. The TFG announced that most of the country was not under its control and claimed that the ICU was regrouping, which the Ethiopian government denied. Al-Jazeera reported that fighting between the ENDF/TFG and Islamic Courts forces in 2007 had resulted in several thousand civilian deaths in Mogadishu.^[217]

Ethiopian military losses had reached unsustainable levels by the years end^[218] and an excess of 50,000 ENDF troops were deployed in Somalia.^[21] ENDF troops were bogged down and facing a multi front war with no prospect of victory.^[219] Oxford Analytica observed at the end of 2007 that the Ethiopian army aimed to win a war of attrition against the insurgency.^[220] According to Professor Abdi Ismail Samatar, as the insurgency grew in strength, it became clear to the Americans that the Ethiopian military occupation was doomed to fail, prompting them to focus on engineering a split within the Islamic resistance movement.^[71]

The invasion resulted in the deaths of many Islamic Courts Union affiliates, leaving a vacuum for the small group of several hundred youth that served as the ICU's Shabaab militia to gain prominence.^[221][25] The group was not a monolithic entity at the time, and effectively represented an alliance of insurgent groups.^[222] During the military occupation, al-Shabaab garnered substantial support from the Somali population, cutting across clan lines. The Ethiopian invasion was the groups primary catalyst for mobilization among the population. Despite its strict ideology, the group was widely perceived as a genuine resistance force against Ethiopian occupation by many Somalis, and while not universally popular, it was widely acknowledged for its effective training and formidable capabilities in pushing out Ethiopian troops. Heavy handed tactics and blatant disregard for civilian life by Ethiopian troops rallied many Somalis to support the al-Shabaab as it successfully branded itself as the most determined and uncompromising resistance faction.^[44][3]

Al-Shabaab forces carried out the first suicide attack of the insurgency on 27 March 2007, against an ENDF checkpoint in Tarbuunka, Mogadishu, using a car bomb. The explosion killed 63 Ethiopian soldiers and wounded another 50. The operation was reported to have been made in retribution for the torture and rape of Suuban Maalin Ali Hassan, a Somali woman, at gunpoint by Ethiopian troops.^[223] Adam Salad Adam, was later announced as the bomber responsible for the operation. It was the first recorded suicide attack in Somalia, and a Shabaab propaganda film was released two days after it occurred.^{[224][225][226]}

By the beginning of 2008, insurgent pressure had mounted on the Ethiopian and TFG troops in the south-central regions of Somalia. The Shabeelle, the Jubba Valley along with the Bay and Bakool regions in particular became hot spots. Islamist fighters gained strength and were able to move from different towns with little resistance as they had accrued significant public support. What had at first seemed to be a series of probes soon morphed into a significant insurgent offensive against Ethiopian and TFG forces.^[192] In early January 2008, Seyum Mesfin, the Ethiopian Foreign Minister claimed that Mogadishu and Somalia had significantly improved since the invasion and that there were no longer any 'no go zones' in the country.^[227] More than 60% of Mogadishu's population had fled the city by the start of the year.^[228] Philippe Lazzarini, the United Nations' top humanitarian official, declared Somalia to be the worst humanitarian crisis in Africa and nearly the worst in the world.^[229]

The TFG parliament was purged of opposition figures and represented a narrow coalition of Somali society. The government was besieged and dysfunctional, with virtually no progress being made for political transition. The government was plagued with charges of corruption and abuse, including the obstruction of relief aid deliveries.^[220] The TFG's police and military forces were notoriously undisciplined, committing numerous acts of murder and sexual violence against civilians. The security forces effectively operated as uniformed clan militia who were loyal to their individual commanders and only nominally under the control of the government. In many instances they were hostile to one another and internal splits even resulted in shootouts between units as they fought over control of revenue from illegal checkpoints.^[230] During 2008, TFG President Abdullahi Yusuf began undermining the new Prime Minister, Nur Hassan Hussein. PM Nur had replaced PM Ali Gedi in November 2007, who was widely viewed as corrupt and an impediment to the reconciliation process. In an attempt to undermine an emerging alliance between opposition groups and PM Nur, President Yusuf had TFG forces engage in widespread looting at the Bakaara Market in order to impede Nur's effort. Much of the criminality in south Somalia during 2008 was linked to TFG security forces. In April 2008, Oxford Analytica observed that the TFG was 'little more' than a collection of armed rival groups.^[231]

Islamist insurgents began adopting sophisticated strategies to win greater public support and legitimacy. To fill in the void left by the Transitional Federal Government, insurgents began to deploy mobile Sharia courts to administer justice while apprehending criminals. They also began clan conflict mediation and distributing aid to the impoverished. Attacks on highway bandits and militia checkpoints became frequent.^[192] The insurgency waged an increasingly complex war against the ENDF and TFG. A targeted assassination campaign was initiated against the TFG, primarily aimed at the National Security Agency (NSA), resulting in many NSA agents and informants being assassinated in 2008. Insurgent attacks further increased in complexity and sophistication, with attacks killing scores of Ethiopian and TFG troops weekly.^[192] In February 2008, Al Shabaab captured the town of Dinsoor after probing it several times. This marked a change in their strategy which previously focused mainly on the capital Mogadishu.^{[232][233][234]} Al-Shabaab began governing territory for the first time in 2008 as it started taking control of significant tracts of southern Somalia.^[37][3] In March, the ICU seized the city of Buloburde and freed many prisoners.^[235] At the end of March 2008 a battle erupted in Mogadishu after TFG forces began robbing a marketplace, resulting Islamist insurgents inflicting heavy losses on the TFG forces after they came defend the merchants.^[236]

During the April 2008 Battle of Mogadishu, the Al-Hidaya Mosque massacre was carried out by Ethiopian troops, inflaming the insurgency.^[237] Tigrayan ENDF troops repeatedly looted Mogadishu's Bakaara market and Somali telecom companies such as Hormuud became a target for looting and vandalism by the Ethiopian army.^[238] Voice of America reported that month that the insurgency was effectively being waged by two distinct groups, the nationalist leaning ICU insurgents and the increasingly international jihadist oriented Al-Shabaab. Residents reported that Islamic Courts insurgents had far more popular support than Al-Shabaab and receiving significant funds from both the local business communities and the Somali diaspora.^[239] The boldest insurgent expansion occurred in April 2008, when Islamist fighters seized control of Jowhar, only 90 km away from the capital Mogadishu.^[192][240] In late May, Jilib and Harardhere fell under the control of insurgents, who then began advancing on the strategic southern port city of Kismayo.^[241] Representatives of both the Islamic Courts and Al-Shabaab entered into a secretive agreement to allow the clan militia in power to remain,^[242] though Al-Shabaab overran the city later in August.^[243]

On 3 March 2008, the United States launched cruise missiles on the town of Dhobley where insurgent leader Hassan Turki was reported to have been present. According to AP, US officials claimed the town was held by Islamic extremists but gave few details to the press.^[244][245] Dhobley was the last town the ICU held a year prior and it had been bombed by US aircraft in that period.^[244] A month later on 1 May 2008, US Tomahawk missiles bombarded Dhusamareb resulting in the assassination of Al-Shabaab leader Aden Hashi Eyrow - along with another senior commander and several civilians. The attack did nothing to slow down the groups participation in the insurgency.^[246] The assassination of Ayro during early 2008 resulted in a sharp radicalization of Al-Shabaab.^[247] The killing of Ayro led to foreign fighters integrating within the ranks of the organization, and resulted in the accession of Ahmed Godane as Emir. This change in leadership was facilitated by American intervention and had significant effect on Shabaab's future decision making regarding the usage of tactics such as suicide bombing.^[44][248]

On 18 March 2008, the US designated Al-Shabaab a terrorist organization.^[231] According to the Institute for Security Studies, the designation of Al-Shabaab as a terrorist organization was an obstacle to the ongoing peace process, as by mid-2008 the popularity of the insurgency had indicated there was a, "thin line if any, between the UIC, Al Shabab and the Somali people"^[249] The terror designation proved to be damaging as it isolated moderate voices among the Islamist resistance movement and gave Al-Shabaab further reason to push against peace talks.^[247]

By mid-2008, al-Shabaab, Islamic Courts Union loyalists and supporters of the Alliance for the Re-Liberation of Somalia (ARS) were the primary insurgent forces operating in Somalia.^[250] The Mogadishu-Afgooye-Baidoa highway became a focal point for ICU and al-Shabaab insurgents; while attacks also began escalating in and around Baidoa. By July, ICU forces controlled the cities of Beledweyne and Wajid.^[251][252] That month forces loyal to the ICU forces fought the ENDF over Hiiraan region^[253][254] and fighting continued in the capital.^[255] The ENDF shelled the western part of Beledweyne with rocket and mortar fire, resulting in an exodus of civilians^[256] and the city saw fierce fighting between Courts fighters and the Ethiopian army in the following weeks.^[257]

During June a faction of the ARS and the TFG signed a ceasefire agreement after months of talks in Djibouti. The agreement was met with resistance from elements within the TFG, chiefly President Abdullahi Yusuf.^[258] The Djibouti Peace Process called for the withdrawal of Ethiopian troops from Somalia.^[188] During June 2008 the ICU publicly declared it would continue its attacks on ENDF/TFG bases^[259] and a new Islamic court was opened in Jowhar.^[260] At the time the TFG was crippled by infighting and largely under the control of warlords as insurgent attacks worsened by the day.^[261] By mid-2008, President Yusuf had lost all the support he had accumulated in the international community. His primary backer, Ethiopia, had also become tired of the TFG president only offering military answers to serious political issues.^[262]

As the insurgency gained most of the territory that had been lost by the Islamic Courts Union during December 2006 and January 2007, fractures began appearing between the different insurgent factions over the Djibouti Agreement. In Beledweyne and Jalalaqsi, the insurgents in power distanced themselves from both Al-Shabaab and the ARS.^[192] Al-Shabaab was estimated to be 2,000 strong by the AU during 2008,^[24] an increase from several hundred at the end of 2006.^[25]

During Autumn of 2008, the insurgency controlled more than 80% of the territory that had been previously lost in the invasion.^[39] As the situation rapidly deteriorated for the military occupation in mid-2008, Ethiopian troops started experiencing desertions. The ENDF began to draw down its forces deployed in Mogadishu and across towns in Somalia.^[192][40] The occupation had a 'corrosive effect' on the ENDF^[40] and the Somalia deployment was viewed as a hardship post.^[263] Ethiopian troops sustained heavy casualties in the war before the Djibouti Peace Process called for their withdrawal.^[188] More than 80% of TFG military and security forces, nearly 15,000 personnel, deserted the government by the end of 2008.^[264] The remaining TFG forces suffered from low morale and also experienced desertions, with many troops continually selling their weapons at local arms markets; only for the weapons to come into the hands of insurgents.^[192] During September 2008 fierce battles raged between the insurgency and ENDF in the capital.^[265]

By October 2008, virtually all opposition groups in the Ethiopian parliament had come to the consensus that the ENDF should be withdrawn from Somalia.^[266] On 26 October, a ceasefire agreement was signed between the Alliance for the Re-liberation of Somalia and the TFG. It was to go into effect on 5 November.^[267]

By November 2008, insurgency had effectively won. The majority of south and central Somalia, along with the capital was now under the control of Islamist factions. Ethiopia had redeployed much of its army out of Somalia by the end of the year.^[40] The success of the insurgents largely represented ordinary Somalis desire to see an end to the anarchy and occupation, as the TFG was dysfunctional.^[258] That same month, ICU insurgents controlled the cities of Jowhar and Beledweyne.^[269] The TFG lost control of the vital port city Merca when the city fell to the insurgency. Al-Shabaab was consolidating a string of military successes and soon began threatening Mogadishu.^[175] On 14 November Shabaab forces pushed only 15 km from Mogadishu near ENDF troops positions.^[243] Other insurgent factions, such as the Islamic Courts captured towns such as Elas, only 16 km away from the capital.^[270] Despite the Ethiopian presence in Mogadishu, by November 2008 insurgents openly walked on the streets.^[270]

By the end of 2008, Al-Shabaab had emerged as one Somalia's most dominant insurgent factions, eclipsing the influence of the Islamic Courts. Some foreign diplomats feared that Al-Shabaab would wage an all out war against other insurgents following the Ethiopian withdrawal.^[271] In October 2008, fighters loyal to the Islamic Courts Union and al-Shabaab fought each other in Balad.^[192] By the end of 2008, while Al-Shabaab had gained substantial popularity for its fight against the Ethiopians, much of the Somali public that once supported the group had grown disillusioned due to its increasingly heavy-handed tactics.^[102]

Mired by infighting, the TFG was once again on the brink of collapse.^[258] President Abdullahi Yusuf admitted that the country was slipping to the insurgency and "raised the prospect his government could completely collapse." Ethiopia announced it would withdraw its troops from Somalia by the end of 2008 on 28 November.^[243]

After long talks in Djibouti over a ceasefire between the TFG and the Alliance for the Reliberation of Somalia, agreement was reached in late November that parliament be doubled in size to include 200 representatives of the ARS along with 75 representatives of the civil society.^[272] A new president and prime minister would be elected by the new parliament, and a commission to look into crimes of war would be established.^[273] A new constitution was also agreed to be drafted.^[274] The International Crisis Group issued a statement declaring that, despite the international community's reluctance to engage with the Islamist opposition, the only viable path to stabilizing the security situation was to reach out and engage directly with its leaders.^[275]

In December 2008, the TFG parliament moved to impeach President Abdullahi Yusuf, accusing him of being a dictator and an obstacle to peace.^[276] After TFG prime minister Nur Hassan had blamed Yusuf for the TFG's failures, Yusuf had fired him without the required approval of parliament.^[277] The TFG once again found itself based largely out of Baidoa and the African Union released a statement declaring the insurgency controlled most the country.^[278] That month President Yusuf resigned after stating that he had lost control of the country to Islamist insurgents.^[42] African Union troops began discussing withdrawing from Somalia and requested the Ethiopians help them quit Mogadishu as well.^[279] Ethiopian president Meles Zenawi declared the mission had been a success, but the operation had had proved to be effectively futile as the transitional government Ethiopia had backed during the war found itself completely powerless in the lead up to the ENDF withdrawal.^[280]

The TFG failed to make any meaningful impact on the ground during is tenure and presided over one of the bloodiest periods in modern Somali history.^[281] During January 2009, the first Transitional Federal Government collapsed and Al-Shabaab overran the seat of the government in Baidoa.^[282] ENDF troops withdrew out of Somalia that month, ending the Ethiopian military occupation, and former Islamic Courts Union leader Sharif Sheikh Ahmed was elected as the 7th president of Somalia at the end of January.^[283][284]

Early during December 2008, Ethiopia announced it would withdraw its troops from Somalia shortly, and but later stated that it would first help secure the withdrawal of the AMISOM peacekeepers from Burundi and Uganda before withdrawing. The quick withdrawal of the AMISOM peacekeepers was seen as putting additional pressure on the United Nations to provide peacekeeping.^[285]

On 12 January 2009, the last ENDF troops departed from Mogadishu, ending the two year long occupation of the capital.^[42][34] Thousands of residents came to Mogadishu Stadium to cheer the withdrawal, and for a period of time the city remained quiet as rivaling insurgent factions cooperated.^[283] The Ethiopian occupation mostly failed.^[38] By the time of the withdrawal, the TFG possessed control over only a few streets and buildings in Mogadishu with the rest of the city coming under control of Islamist factions, particularly Al-Shabaab.^[35] The withdrawal of Ethiopian troops sapped Al-Shabaab of the widespread support it had enjoyed from civilians and across clan lines during the occupation.^[3] The groups significant support from the Somali diaspora dwindled in response to the usage of terror tactics.^[286] However, the withdrawal came too late to have a substantial impact on the Al-Shabaab's transformation into a formidable oppositional force.^[287]

After the parliament took in 200 officials from the 'moderate' Islamist opposition, ARS leader Sharif Sheikh Ahmed was elected TFG President on January 31, 2009.^[284] Al Shabaab rejected any peace deal and continued to take territories, including Baidoa. Another Islamist group, Ahlu Sunna Waljama'a, which is allied to the TFG and supported by Ethiopia, continued to attack Al-Shabaab.^{[288][289][290]} Al-Shabaab accused the new TFG President of accepting the secular transitional government and have continued the civil war since he arrived in Mogadishu at the presidential palace.^[291]

Islamist insurgents, ENDF troops, TFG forces, AMISOM forces, and other involved parties in the conflict sustained considerable casualties. The true extent of these losses remains uncertain, primarily due to a lack of transparency from the involved parties and a dearth of reporting on casualties.

Ethiopian forces in Somalia sustained heavy casualties^[292][293] but the extent and figure of losses remain uncertain, primarily due to censorship on the war enforced by the Ethiopian government government from 2006 to 2009. In early 2007, NBC News reported that in Addis Ababa, a blackout of information regarding the war prevailed. Opposition groups in the Ethiopian Parliament to the ruling TPLF were never informed on the number of soldiers who had been killed in Somalia, a policy which the TPLF continued until and after the withdrawal.^{[294][266][295]} Urban warfare in Mogadishu proved to be especially difficult for the Ethiopian army and caused heavy losses.^[296] A January 2009 report by an independent regional security agency estimated at least 3,773 Ethiopian troops had died in Somalia since late 2006.^[297] Al-Shabaab operations between 2007 and 2009 had inflicted over a thousand fatalities on Ethiopian troops.^[298] By the end of 2007, ENDF casualties had reached an 'unsustainable level'. Somali witness accounts in Mogadishu estimated a rate of approximately 200 Ethiopian casualties weekly.^[218] Independent experts claimed the ENDF casualty rate was around 100 troops a week by the end of the occupation. Estimates of losses are further complicated by the practice of ENDF troops in Somalia routinely disguising themselves in Somali TFG uniforms to conceal their presence.^[218][299] Shortly after the January 2009 withdrawal, Meles Zenawi publicly declined to disclose the number of ENDF casualties incurred during the occupation, stating on national television:

''...regarding the details on those killed or wounded in Somalia, I think the House does not need to know about how many were killed or wounded...I also think that I do not have an obligation to present such report."^[295]

The figures for AMISOM troops killed in Somalia from their deployment in early 2007 to 2009 has also never been publicly revealed. African Union officials only publicly commented on casualty estimates on their entire operation for the first time in 2023.^[300] AMISOM suffered several hundred casualties, but the figure from 2006 to 2009 is unknown. Ugandan Peoples Defence Forces (UPDF), was one of the largest AMISOM contingents, but never published figures on troop casualties.^[299][301] Troops deployed to Mogadishu from TFG President Yusuf's home region of Puntland in support of his government suffered heavy casualties.^[262]

In December 2008, the Elman Peace and Human Rights Organisation said it had verified that 16,210 civilians had been killed and 29,000 wounded since the start of the war in December 2006.^[31] Somali government Foreign Minister Ahmed Moalim Fiqi accused the Ethiopian army of killing 20,000 civilians.^[302][32] By November 2007, the figure of displaced people topped one million.^[33]

Ethiopian troops and Transitional Federal Government forces committed human rights abuses and war crimes, including murder, rape, assault, and looting. In their December 2008 report 'So much to Fear' Human Rights Watch warned that since the Ethiopians had intervened in 2006 Somalia was facing a humanitarian catastrophe on a scale not witnessed since the early 1990s. They went on to accuse the TFG of terrorizing the citizens of Mogadishu and the Ethiopian soldiers for increasing violent criminality.^[303] Under the command of Colonel Gabre Heard, nicknamed 'Butcher of Mogadishu', soldiers from the Tigrayan Peoples Liberation Front (TPLF) participating in the occupation routinely bombed civilian areas and killed thousands of civilians.^[304] Reports of atrocities by forces under his command have made him infamous in Somalia.^[107]

American reporters touring rural Somalia reported that in village after village, locals had described a reign of terror by the Ethiopian army.^[305] Amnesty International accused the Ethiopian National Defence Force of increasingly engaging in throat-slitting executions of Somalis during early 2008.^[306] On April 19, 2008, Ethiopian soldiers committed the Al-Hidaya Mosque massacre.^[237][307] The ONLF accused the ENDF of hunting down Somalis from the Ogaden clan and Oromos in Somalia for arbitrary detention and executions.^[206] Ethiopian PM Meles Zenawi publicly dismissed reports of war crimes from the international media and human rights groups as a 'smear campaign' against the ENDF in Somalia.^[308] After attacks on civilian areas in Mogadishu during 2007, European lawyers considered whether funding for Ethiopia and TFG made the EU complicit in war crimes, the deliberations of which were never made public.^[309][310]

By the end of the occupation, the majority of the territory seized from the Islamic Courts Union during the December 2006 and January 2007 invasion had fallen under the control of various Islamist and nationalist resistance groups.^[41][44] The invasion failed to empower the Transitional Federal Government, which only controlled parts of Mogadishu and its original 2006 capital of Baidoa by the last weeks of the military occupation.^[41][3] The Ethiopian army withdrew from Somalia with significant casualties and little to show for their efforts.^[311] The insurgency had achieved its primary goal of removing the Ethiopian military presence from most of Somalia by November 2008^[40] and was successful in achieving several of its most important demands.^[14]

During 2007 and 2008, Somalia plunged into severe levels of armed conflict, marked by frequent assassinations, political meltdown, radicalization, and the growth of an intense anti-American sentiment. The situation in the country exceeded the worst-case scenarios envisioned by many regional analysts when they first considered the potential impact of an Ethiopian military occupation.^[247] A Royal Institute of International Affairs report observed that Ethiopian/American support for the TFG instead of the more popular Islamic Courts administration presented an obstacle, not contribution, to the reconstruction of Somalia.^[312] For the Americans the invasion had resulted in nearly the complete opposite of what had been expected, as it had failed to isolate the Islamic movement while solidifying Somali anger to both the United States and Ethiopia. The result of the invasion had been the defeat of Somali Islamists considered to be 'moderate' while strengthening the movements most radical elements.^[305] In 2010, US ambassador to Ethiopia Donald Yamamoto stated that the Ethiopian invasion had been a mistake and "not a really good idea".^[313] By the US military's own metrics, the war in Somalia was never effectively prosecuted. A 2007 study commissioned by United States Department of Defense warned that American participation in the war was, "...plagued by a failure to define the parameters of the conflict or its aims; an overemphasis on military measures without a clear definition of the optimal military strategy;"^[314] According to the Conciliation Resources report titled 'Endless War':^[315]

Military occupation, a violent insurgency, rising jihadism, and massive population displacement has reversed the incremental political and economic progress achieved by the late 1990s in south-central Somalia. With 1.3 million people displaced by fighting since 2006, 3.6 million people in need of emergency food aid, and 60,000 Somalis a year fleeing the country, the people of south-central Somalia face the worst humanitarian crisis since the early 1990s.

As the ENDF withdrew from Somalia, tensions between the differing resistance factions exacerbated.^[40] By the end of 2008, most elements of the pre-invasion Islamic Courts had merged into one of the two wings of the Alliance for the Re-liberation of Somalia or had joined Al-Shabaab. Some Islamic factions continued operating under the ICU banner into 2009 and tended to support the new TFG government led by Sharif Ahmed, which described the ICU groups as the governments 'paramilitary'.^[316]

Al-Shabaab was particularly empowered by the occupation, as it established itself as an independent resistance faction in early 2007. The group became battle hardened over the next two years and notably began governing territory for the first time in 2008.^[37][44] In effect the invasion had morphed Al-Shabaab from a fringe movement to a dominant insurgent political force.^[317] Instead of eliminating 'Jihadist' activity in Somalia, the Ethiopian invasion had the effect of creating more 'Jihadis' than had existed in the country before.^[3] By the time of the ENDF withdrawal, Al-Shabaab's forces had grown significantly in numbers, swelling from just six hundred to several thousand fighters strong since the invasion began.^[25] After the killing of the groups leader Aden Hashi Ayro in 2008, Al-Shabaab began publicly courting Osama bin Laden in a bid to become part of Al-Qaeda, but was rebuffed by bin Laden.^[44] Several months after the ENDF withdrawal, Foreign Affairs noted that Al-Qaeda's foothold in Somalia post-occupation was in significant part the result of the invasion.^[317] Following the killing of Osama bin Laden in 2011, Al-Shabaab pledged allegiance to Al-Qaeda in 2012.^[44]

A sharp increase in radical recruitment in Somali diaspora in Europe and the United States since 2007 has been linked with the overthrow of the ICU and the Ethiopian military occupation.^[318] This resulted in the first ever American suicide bomber carrying out an attack in Somalia in October 2008.^[319] During 2008 there were an estimated 100 foreign fighters in Somalia, a figure which increased to 450 the next year as Al-Shabaab gained strength.^[118] In 2024, Somalia's Minister of Justice Hassan Mo'allin Mohamoud publicly stated the wave of terrorism the country is experiencing was the 'direct result' of the 2006 invasion.^[320]

Attacks off the Somali coast were suppressed by anti-piracy operations carried out by the Islamic Courts Union's coast guard during 2006. Following the ICUs overthrow, incidents of pirate attack rapidly proliferated during 2007 and 2008.^{[162][321][17]} Top personnel in the Seafarers' Assistance Programme reported that elements of the TFG and Puntland governments were involved in piracy due to lucrative profits.^[321] As the Ethiopian army was being driven from southern and central Somalia by the insurgency, ENDF military bases provided safe havens for Somali pirates who had secured large ransoms; in return for cash payments from the pirates.^[322]

After Sharif Ahmed had become president at the end of January 2009, the remaining ICU groups, supporters of the Alliance for the Re-liberation of Somalia and other insurgent/opposition elements effectively disappeared as members from the organizations merged into new organizations that aligned with their views. Those who did not join the Sharifs government either joined the newly formed Hizbul Islam (Islamic Party), which had formed through a merger of several insurgent groups, or Al-Shabaab. Mediation had begun between the newly formed Hizbul Islam and the new Transitional Government of led Sharif. A growing divide was reported in the Al Shabaab organization that controls much of southern Somalia as a large number of Al Shabaab leaders who had held positions in government during the six-month reign of the Islamic Courts Union. They had reportedly met behind closed doors with the President of the Transitional Government and the TFG had announced that Sharia law would be implemented in Somalia, but it had not acted on it.^[323][324]

By 2009, al-Shabaab started drastically altering its choice of targets and frequency of attacks. The use of kidnappings and bombings in urban areas significantly grew in use.^[325] The significant support the group had previously enjoyed from the Somali diaspora dwindled in response to the usage of terror tactics.^[286] Ethiopia, the TFG's closest ally during 2004 to 2009, had taken the lead in training and integrating a Somali army but failed. Between 2004 and 2008, over 10,000 Ethiopian trained TFG soldiers deserted or defected to the insurgency. When Ethiopian forces withdrew from Somalia in early 2009, the task of forming a new army was given to AMISOM. At this point there was still no meaningful army chain of command.^[326]

Despite the withdrawal of most ENDF troops following the 2008 Djibouti Agreement, there has been a continued occupation of Somalia by the Ethiopian army. Two weeks after the January 2009 withdrawal, it was reported that Ethiopian troops had once again crossed the border following the fall of Baidoa to Al-Shabaab. Bereket Simon, spokesman for the Ethiopian government, described the reports as fabrications and responded "The army is within the Ethiopian border. There is no intention to go back,"^[327] In late 2011, Ethiopian troops returned to Somalia Somalia (coinciding with Kenya's invasion) in large numbers for the first time since their 2009 withdrawal.^[311] In 2014 the Ethiopian troops that deployed to a buffer zone in some parts of southern Somalia were integrated into AMISOM. Former head of the ICU, Sharif Sheikh Ahmed continues to campaign for the withdrawal of the occupying Ethiopian forces.^[328] On 13 November 2020 Bloomberg reported that Ethiopia withdrew thousands of troops from Somalia and redeployed them to fight the Tigray War.^[329] In July 2022, as the Tigray War was ongoing, Al-Shabaab launched a major incursion into Ethiopia in order to infiltrate the southern Bale Mountains.^[330]

• So Much To Fear: War Crimes and the Devastation of Somalia – Human Rights Watch (December 2008)
• Shell-Shocked Civilians Under Siege in Mogadishu – Human Rights Watch (August 2007)
• Routinely targeted: Attacks on civilians in Somalia – Amnesty International (May 2008)
• “Why Am I Still Here?” The 2007 Horn of Africa Renditions and the Fate of Those Still Missing – Human Rights Watch (October 2008)
• Copy of Djibouti Agreement signed between the ARS and TFG – (9 June 2008)

• Islamic Courts ready for offensive – Al Jazeera English report on ICU insurgents in southern Somalia (14 Sep 2007)
• Mohammed Abdullahi Farah Somalia Piece – Channel 4 report on insurgency in Mogadishu (10 October 2007)
• Opposition fighters gaining ground in Somalia – Al Jazeera English report on insurgent advances across the south (31 Aug 2008)
• Lindsey Hilsum Somalia Piece – Channel 4 report on fighting between Ethiopian troops and insurgents in Mogadishu (3 December 2008)
• Chaos feared in Somalia as Ethiopians pull back – Al Jazeera English report on Ethiopian military withdrawal from Somalia (15 Jan 2009)

• Khayre, Ahmed Ali M. (March 21, 2013). "Self-Defence, Intervention by Invitation, or Proxy War? The Legality of the 2006 Ethiopian Invasion of Somalia". African Journal of International and Comparative Law. 22 (2): 208–233. doi:10.3366/ajicl.2014.0090. eISSN 1755-1609. SSRN 2236622.
• Samatar, Abdi Ismail (2008). "Ethiopian Occupation and American Terror in Somalia". Post-Conflict Peace-Building in the Horn of Africa. Lund University. ISBN 978-91-7267-256-7.
• Cocodia, Jude (May 24, 2021). "Rejecting African Solutions to African Problems: The African Union and the Islamic Courts Union in Somalia". African Security. 14 (2): 110–131. doi:10.1080/19392206.2021.1922026 – via Taylor & Francis.
• Mueller, Jason C. (May 9, 2016). "The Evolution of Political Violence: The Case of Somalia's Al-Shabaab". Terrorism and Political Violence. 30 (1): 116–141. doi:10.1080/09546553.2016.1165213 – via Taylor & Francis.
• Civins, Braden (2010). "Ethiopia's intervention in Somalia 2006-2009" (PDF). Yonsei Journal of International Studies. 2 (2): 121–138.
• Samatar, Abdi Ismail (March 2007). "Ethiopian Invasion of Somalia, US Warlordism & AU Shame". Review of African Political Economy. 34 (111): 155–165. JSTOR 20406369 – via JSTOR.