So you have a Staggered feed if the magazine is attached to the Action.

Are you doing an AICS magazine? If so, you simply need to relieve the back of the magazine well in the Action. Many have done it & we’ve discussed it before. There are some pictures floating about showing this. However, it’s like you just said.. with all the parts you can simply “play” with it. That is, start filing or use a Dremel o the back of the magwell edge until the magazine locks in the bottom metal & sits in the Action at the correct height.

BTW: what is your Action screw spacing? What cartridge are you running?