A cooling system for a fuel cell is provided with a cooling apparatus that regulates the temperature of the fuel cell by supplying the fuel cell with a cooling liquid via a cooling liquid passage by means of a water pump; an impurity-removing device which is provided in the cooling liquid passage and which removes impurities from within the cooling liquid; and flow generating means for causing the cooling liquid in the cooling liquid passage to flow through the impurity-removing device when the fuel cell is not operating.