I wouldn't the vibration of the motor will make that flapper move and mess with you.
Stock vam mount will mount in the mustang in stock location. That is where I would start. Can always change after getting it running. No use adding variable on running right off the bat. On the intercooler look at my video. Cheap e-bay intercooler and "U" bend exhaust pipe cut and welded. Just make sure to add welded ridge on end to prevent hose blowing off. I would get running first no intercooler and running good. Keep boost low because do need intercooler with big vam and la3. Once all this is right then add intercooler. Make sure to test all intercooler pipe. I made up this homemade device to do it with. Pressure test with no more than 10psi. Hose can blow off and hurt I know.
air regulator and some hose and gauge.
http://i177.photobucket.com/albums/w...5/100_5699.jpg
While at it with engine out. Think about porting the exhaust manifold if it has e-6 on casting if not leave it alone. You be luck if not cracke if not e-6
http://www.cardomain.com/ride/530871/50
Ps look over this site real good. He does good writeups. And gives real good advice. He is on this forum . Maurice