Lippy - I went back and skimmed this entire thread and I didn't see where the type of flywheel you are using was mentioned. I'm kind of assuming it's a McLeod flywheel that is typically paired up with this dual-disk clutch. But, there are several quality aluminum flywheels out there that various builders get attached to. I remember reading that sometimes dual disk clutches are paired with flywheels that are thinner than what is usually used for a singe disc clutch - to offset the additional thickness of the pressure plate and disk assembly. It's possible the root cause of this is a flywheel that is possibly a little too thick for use with this clutch - which would set the clutch pack to the rear in the car - thus possible interference with the bearing retainer. Even if this is so, by shortning the retainer the problem should be solved.
I don't envy you having to muscle that transmission out and back in again.