The confusion arises from the fact that Transgo changes their instructions like I change my shorts (once a year or so).

The older instructions gave a PR spring setting of so many inches, then so many turns and finally flush.

Ditto the throttle valve, it was originally a 1/8" air gap and then no mention.

The cup orifice is a crap shoot, I would install it and remove it only is you experience RPM flareup on the 2-3 shift.