A multi-channel pump includes a pump chamber, an inflow passage connected to the pump chamber, two or more outflow passages connected to the pump chamber, outflow side active valves provided so as to correspond to the outflow passages, and a movable body reciprocated to change a volumetric capacity of the pump chamber. The movable body may be a piston reciprocated within a cylinder that is connected to the pump chamber. A control method for a multi-channel pump includes an initial discharge step between a suction step and a discharge step. The multi-channel pump may be preferably utilized in a fuel cell.