The Agreement calls for JMEC to be chaired by a prominent African personality appointed by the IGAD Assembly of Heads of State and Government in consultation with IGAD-PLUS Partners.

The Chairperson of JMEC, Mr. Festus G. Mogae, was President of the Republic of Botswana from 1998 to 2008.  After leaving office in 2008, Mr. Mogae received the Ibrahim Prize for Achievement in African Leadership.