Just got off the phone with the machinist. He's going to come out and look at the motor, he hopes next week. So that's great news.
Regarding the Mancini timing chain. He said with the intake valve at TDC (Maximum lift?) it was off spec by around 10 degrees (ref degree wheel). He said there are two keyways on the Mancini kit that can compensate 4 degrees, but that wasn't enough to bring it to spec. When they tried another chain kit everything lined up.