Crazy Horse Mustangs can do it.
http://www.crazyhorseracing.com They are a bit slow (name a speed shop that isn't) but much of their work is featured in Muscle Mustangs and Fast Fords. The work they do is top-notch.
I've seen how they take care of cars when the work on them. If Ford won't warranty then take it there. You can also try one of the SVTOA Ford Dealerships.. Fullerton Ford is one.. I'm not sure what the ones on L.I. are. There isn't one on Staten Island.