A system and method for providing an anode exhaust gas bleed in a fuel cell system. The system provides a normal anode side bleed using first and second bleed valves if the first and second bleed valves are not blocked and the temperature of first and second split sub-stacks is greater than a predetermined temperature, provides a continuous anode side bleed using the bleed valves if the bleed valves are not blocked and the temperature of the sub-stacks is less than the predetermined temperature, provides a normal center anode bleed through the drain valve if the first or second bleed valve is blocked and the temperature of the sub-stacks is above the predetermined temperature and provides a continuous center anode side bleed through the drain valve if the first or second bleed valve is blocked and the temperature of the sub-stacks is below the predetermined temperature.