Depends on what your defenition of "mildly" ported is. If you just mean the EGR bumps ground down and some bowl work then you'll still be flowing right near 200cfm which is what those heads do stock. The Cobra/GT40/Exploder intakes flow 200cfm in stock form. Well, the lower does, the upper flows 250 untouched. The lower can be safely ported out to the 240-250 cfm range and if you want to go that route I'd get an untouched one from wherever and send it out to a user named tmoss on the Corral forums and have him do your lower.
However I'd just go find a good Explorer intake if I was you and roll with that untouched. Just cleaned up obviously. One of the BEST combos you'll ever have for a street car on the stock 302 block is a set of GT40 heads, GT40 intake, stock cam, all the bolt ons and a Supercharger.
2000 Mustang GT Steeda #0048 34k miles. 99 Cobra 4V swapped, FTBR IRS swapped, exhaust, tuned by James Gordon.
Just because I give you advice, doesn't mean I know more than you. Its just means I've done more stupid ****.