A fuel cell system that comprises an SOFC that generates power as a result of an oxide gas being supplied to an air electrode and a fuel gas being supplied to a fuel electrode, a plurality of exhaust fuel gas discharge lines that discharge, into the atmosphere, exhaust fuel gas that has been discharged from the fuel electrode, exhaust fuel gas discharge valves that are respectively provided to the plurality of exhaust fuel gas discharge lines, a plurality of exhaust oxide gas discharge lines that discharge, into the atmosphere, exhaust oxide gas that has been discharged from the air electrode, exhaust oxide gas discharge valves that are respectively provided to the plurality of exhaust oxide gas discharge lines, and a control device that, when stopping the SOFC, closes the exhaust oxide gas discharge valves before the exhaust fuel gas discharge valves.