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At Brent's suggestion, I pulled the trans mount bolts, supported the car and engine, loosened the trans bolts about 0.25", and pulled the trans back about that far. Everything worked fine. The clutch released, and there was plenty of travel at the throw-out bearing. As a check, I then pushed it back in so there was only about 0.1" between the bell and the trans mount, and it didn't release. It seems like there is something up with the pilot bearing. I also rechecked the clearance for the trans input shaft and it seems like I'm fine there. After that, I pulled the trans.
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