A method for reducing the probability of an air/hydrogen front in a fuel cell stack is disclosed that includes closing anode valves for an anode side of the fuel cell stack to permit a desired quantity of hydrogen to be left in the anode side upon shutdown and determining a schedule to inject hydrogen during the time the fuel cell stack is shutdown. The pressure on an anode input line is determined and a discrete amount of hydrogen is injected into the anode side of the stack according to the determined schedule by opening anode input line valves based on the determined pressure along the anode input line so as to inject the hydrogen into the anode side of the stack.