A detection voltage, which is obtained by dividing the voltage of a fuel cell 1 by resistors, is compared with a first reference voltage Vref1 by a differential amplifier. The differential voltage is input to a control section. The control section performs PWM control for the circuit section according to the difference. The first reference voltage Vref1 is set according to the dividing ratio of the resistors, based on the output voltage when the fuel cell generates power at the maximum power point. To determine the output voltage for maximum power generation, a characteristic curve representing a current-voltage characteristic is approximated by an approximating line within a range excluding an area in which the output voltage changes abruptly when the output current is nearly zero, and an extrapolated voltage is obtained on the extension line of the approximating line at an output current of zero. Fifty percent of the extrapolated voltage is then determined as the output voltage when the fuel cell generates power at the maximum power point. Thus, a fuel cell control system that identifies a highly precise output voltage for power generation at a maximum power point and controls power so that the maximum power point is not exceeded could be provided.