The Corksport fmic wont allow you to run it with any aftermarket intake as it utilizes the tmic as an air ram.
The Turbo XS, Exhaust Depot, Begi, Cp-E should work with your AEM. Cobb not too sure I've only seen it installed with their intake so I'm not sure about a CAI.
The ATP won't work with a CAI
I think that's all the fmic available for the MS3