Hmmm well now that I think of it, a cylinder running with no spark/fuel can incur a higher pumping loss if the exhaust valve opens significantly later than when the air in the cylinder is at the pressure in the exhaust manifold, because the energy used to create the vacuum will be lost on top of having to push the gases out the cylinder in the exhaust stroke. At higher intake manifold pressures though, I doubt this is a problem as the exhaust valves always open a bit early anyways.
But then running any cylinder at a higher load is more efficient due to the higher temperature and pressure.
Seems like a toss-up at this point. Someone should just go deactivate 2 fuel injectors on an alpha-N based engine (in open loop) and see what happens.
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