Ive got a bit of an update for today.
Drove the car around today after bleeding the system the proper way (from the bentley), and to my surprise the problem is almost gone. I think it is more of an ECU issue at this point because I have three ECU's:
mine stock:
Would Drive and pull normal, but for some reason if you downshifted or started cruising at 3.5 RPMs and then punched it it would misfire or hesitate etc. but it would Drive through it completely normal, and would pull through it as well.
mine chipped
same symptoms, except it would be at 4k RPms, and had more difficulty pulling through it. (still pulling a 1244)
Ryans stock: couldnt get problems to arise.
mine Mark D
Ryans Stock