A fuel cell system comprising a fuel cell stack is disclosed. An ozone generator is configured to introduce ozone into a coolant in the fuel cell system. A deionisation apparatus is coupled to the fuel cell stack. A bypass conduit is arranged in parallel with the deionisation apparatus. A controller is configured to control flow of the coolant to the fuel cell stack through either the deionisation apparatus or the bypass conduit based on the operating state of the ozone generator.