A method for controlling intake manifold oxygen for an engine having a fresh air inlet and an exhaust gas recirculation (EGR) circuit includes the steps of: establishing an ideal excess oxygen ratio for combustion in the engine; calculating a total mass flow of oxygen to be delivered to an intake manifold of the engine to maintain the ideal excess oxygen ratio; determining a mass flow of EGR oxygen in the mass flow of EGR gas; and controlling a desired mass flow of fresh oxygen to be delivered to the intake manifold such that the sum of the desired mass flow of fresh oxygen and the mass flow of EGR oxygen is equal to the desired total mass flow of oxygen, by re-adjusting the EGR valve.