Are you datalogging the car? You have anything to look at? Are your knock sensors still active and enabled? When I was first tuning my 01, the knock sensors would become active at 4k and higher (This is with a Novi 1000). Ended pulling timing at .5 degree increments up to a total of 5.5-6 degrees by 6300.
Definitely noticed something was up after a few highway pulls.
How much power did it end up making?