NOVELTY - A fuel cell control system (100) has a fuel cell stack (1) having anode and cathode arranged on both sides of an electrolyte layer, a gas reforming apparatus (3) for producing reformed gas containing hydrogen from fuel gas, a reformed gas supply path (R1a) for supplying reformed gas to anode, oxidizing agent gas supply path (R2b) for supplying oxidizing agent gas to cathode, fuel gas supply path (R3,R5) for supplying fuel gas to fuel cell stack, cathode supply switching unit (V3), anode supply switching unit (V5) and combustion equipment (4).    USE - Fuel cell control system.    ADVANTAGE - The deterioration of membrane electrode assembly at the time of fuel cell stop is prevented.    DETAILED DESCRIPTION - A fuel cell control system has a fuel cell stack having anode and cathode arranged on both sides of an electrolyte layer containing phosphoric acid impregnated basic polymer, a gas reforming apparatus for producing reformed gas containing hydrogen from fuel gas, a reformed gas supply path for supplying reformed gas to anode, oxidizing agent gas supply path for supplying oxidizing agent gas to cathode, fuel gas supply path for supplying fuel gas to fuel cell stack without passing through reforming apparatus, cathode supply switching unit, anode supply switching unit and combustion equipment. The cathode supply switching unit stops supply of oxidizing agent gas to cathode, and supplies fuel gas to cathode without passing through reforming apparatus. The anode supply switching unit stops supply of reformed gas to anode, and supplies fuel gas to anode. The combustion equipment carries out combustion of gas discharged from fuel cell stack. An INDEPENDENT CLAIM is included for fuel cell stop method, which involves cutting away the load of fuel cell stack, stopping supply of oxidizing agent gas to cathode, switching the gas supply path to cathode, supplying fuel gas to cathode, stopping supply of fuel gas to anode, and supplying fuel gas to anode without switching gas supply path to anode.    DESCRIPTION OF DRAWING(S) - The drawing shows the schematic view of fuel cell control system. (Drawing includes non-English language text)    Fuel cell stack (1)    Gas reforming apparatus (3)    Combustion equipment (4)    Fuel cell control system (100)    Reformed gas supply path (R1a)    Oxidizing agent gas supply path (R2b)    Fuel gas supply path (R3,R5)    Cathode supply switching unit (V3)    Anode supply switching unit (V5)