Mogadishu could not deal effectively with the political challenge in the north because the interim government of President Mahamaad gradually lost control of central authority. Even though the interim government was dominated by the USC, this guerrilla force failed to adapt to its new position as a political party. Although the USC was primarily a Hawiye militia, it was internally divided between the two principal Hawiye clans, the Abgaal and Habar Gidir. Once in power, the clans began to argue over the distribution of political offices. Interim president Mahammad emerged as the most prominent Abgaal leader whereas Aidid emerged as the most influential Habar Gidir leader. Fighters loyal to each man clashed in the streets of Mogadishu during the summer of 1991, then engaged in open battle beginning in September. By the end of the year, the fighting had resulted in divided control of the capital. Aidid's guerrillas held southern Mogadishu, which included the port area and the international airport, and Mahammad's forces controlled the area around the presidential palace in central Mogadishu and the northern suburbs.

A United Nations-mediated cease-fire agreement that came into effect in March 1992 helped to reduce the level of fighting, but did not end all the violence. Neither Mahammad nor Aidid was prepared to compromise over political differences, and, consequently, Mogadishu remained divided. Aidid's faction of the USC comprised an estimated 10,000 guerrillas. Many of these men looted food supplies destined for famine victims and interfered with the operations of the international relief agencies. They justified their actions on the grounds that the assistance would help their enemies, the USC faction loyal to Mahammad. The proMahammad forces included an estimated 5,000 fighters. They also used food as a weapon.