The Great Lakes refugee crisis is the common name for the situation beginning with the exodus in April 1994 of over two million Rwandans to neighboring countries of the Great Lakes region of Africa in the aftermath of the Rwandan genocide. Many of the refugees were Hutu fleeing the predominantly Tutsi Rwandan Patriotic Front (RPF), which had gained control of the country at the end of the genocide. However, the humanitarian relief effort was vastly compromised by the presence among the refugees of many of the Interahamwe and government officials who carried out the genocide, who used the refugee camps as bases to launch attacks against the new government led by Paul Kagame. The camps in Zaire became particularly politicized and militarized. The knowledge that humanitarian aid was being diverted to further the aims of the genocidaires led many humanitarian organizations to withdraw their assistance. The conflict escalated until the start of the First Congo War in 1996, when RPF-supported rebels invaded Zaire and sought to repatriate the refugees.

The African Great Lakes are a series of lakes constituting the part of the Rift Valley lakes in and around the East African Rift. The series includes Lake Victoria, the third-largest freshwater lake in the world by area; Lake Tanganyika, the world's second-largest freshwater lake by volume and depth; Lake Malawi, the world's eighth-largest freshwater lake by area; and Lake Turkana, the world's largest permanent desert lake and the world's largest alkaline lake. Collectively, they contain 31,000 km3 (7,400 cu mi) of water, which is more than either Lake Baikal or the North American Great Lakes. This total constitutes about 25% of the planet's unfrozen surface fresh water. The large rift lakes of Africa are the ancient home of great biodiversity, and 10% of the world's fish species live in this region.