The invention relates to a cooling system for a fuel cell, comprising a main heat-transfer-fluid circuit including a circulation pump (6) and a heat exchanger (8) with the exterior, which feed an upstream pipe (12) supplying the fluid to the cells (4) of the fuel cell, said fluid leaving the cells via a downstream pipe (14) in order to return to the main pump. The invention is characterised in that the main circuit comprises a three-port controlled valve (10, 16) on each upstream (12) and downstream (14) pipe, the third available port (10c) of the upstream pipe (12) being connected to the inlet of the pump (6) and the third available port (16c) of the downstream pipe (14) being connected to the outlet of the pump in order to establish a secondary fluid circuit.