There are a lot of us 96-98 owners that have put the PI intake on NPI heads with success without the adapter plates. I thank the pioneers that attempted this in the beginning. They don't quite match up, but are close enough to work. Using NPI gaskets with running some RTV on the inner portion to seal the air intakes, 99+ coolant tube (between the V) and either modifying the waterpump nipple or replacing it with the 99+ version is all that is needed. See the link below for more details. I couldn't be happier with the swap performance wise and the peace of mind that my intake won't crack in the future as I have a new 02+ PI intake with the aluminum crossover.
http://forums.stangnet.com/showthread.php?t=428950