I am not sure how familiar with fluid flow you are, but think about it this way...
Your engine is a restriction in a fluid system. The more air you flow through it, the more power you make.
There are generally two ways to flow more fluid through a restriction. One is to increase the pressure drop (raise the upstream pressure).
Turbo, Supercharger, and to some extent nitrous all do this.
The other is to raise the CV of the restriction, IE _ make it less restrictive.
Porting, cam, exhaust, bigger carb, etc (all your traditional modifications) all do this.
So increasing the pressure drop will increase power (supercharger) but also decreasing the restriction will increase it even more. You may be seeing less boost, but you will be making more power.
Make sense?