A fuel cell system includes a fuel cell (FC stack), an inflow passage valve provided in a hydrogen inflow passage through which hydrogen is supplied to the FC stack, and a discharge passage valve provided in a hydrogen discharge passage through which hydrogen containing gas is discharged from the FC stack as exhaust gas. In the fuel cell, hydrogen is supplied to the FC stack intermittently in accordance with an amount of hydrogen consumed in the FC stack, by controlling opening and closing of the inflow passage valve and the hydrogen discharge valve.