I remember reading in Mustangs and Fast Fords awhile back, when they tested the 96-98 heads they actually did ok, and the biggest restriction truly was the early intake. I know people who have spent the extra cost to port and polish these early heads with great results. However, with that said, it is much cheaper and easier to just replace the heads and intake at the same time. I have the full PI swap and high compression pistons. I am about to go stage 2 low lift cams due to the amoutn of compression I currently run. 
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1996 GT
4.6 (bored .030 over)
FRPP Shorty Headers
PI Head and Intake, Forged Flat Top Pistons, Forged Rods, Cobra Crank, Mach 1 flywheel, Steeda Timing Adjuster, Steeda Underdrive pulleys, BBK Catted X-Pipe, Flomaster 3 chamber exhaust, SCT X2 programmed and dyno tuned, 3.73 gears, UPR Cold Air Intake, 70mm FRPP Throttle body.
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