Being naturally aspirated it would then rely on atmospheric pressure to push air into the engine. I doubt the intake manifold and plenum would be the restriction. The rate of flow into a given cylinder through the inlet valve couldn't be more than the plenum's capacity. I wouldn't have thought anyway. If air coming in is the problem then you need to work backwards from the exhaust as well. The engine can only take in what it has room for, if there are any pressure waves left over in the exhaust and intake runners then this will restrict the amount of air that can come in. An efficient exhaust is the key to maximising intake charge.
Unbolt the exhaust at the headers and do a dyno run, you will find your power curve change dramatically. The thing people don't realize is to achieve maximum "power", the exhaust should be removed as it is the most restrictive thing at high rpm.