The ATJLF is governed by an Advisory Committee (AC) made up of seven people, including representatives of the two funding foundations. The Advisory Committee provides high level strategic oversight and direction of the fund. They also provide matrix management of the Director of the ATJLF Secretariat. The Advisory Committee also makes final decisions on award of grants.

The ATJLF Secretariat comprises three staff members --- the Director, the Grants and Programmes Officer and an Administrative Assistant. The staff work very closely with employees of IDEG who serve as the host institution of the ATJLF.