A system for controlling a fan of a vehicle engine. The system comprises: i) a fan configured to selectively cool the vehicle engine; and ii) an engine control module configured to: a) turn on the fan when the engine temperature exceeds a selected temperature threshold; b) determine when the vehicle engine is operating in an engine braking mode; and c) in response to the engine operating in the engine braking mode, turn on the fan when the engine temperature is below the selected temperature threshold. The engine control module turns the fan off as a means of hardware protection of the fan clutch even during engine braking modes.