A fuel cell system is provided with a fuel cell, an electric storage device, and a controller which determines a directed drive amount for a drive device. In the case where a drive request is input during a low-efficiency drive period in which power is supplied from the electric storage device, the directed drive amount after power generation by the fuel cell is begun is restrained. This arrangement allows a driving state to be smoothly changed even when power supply to the drive device is changed from power supply using the electric storage device alone to that using both the fuel cell and the electric storage device.