The manual wasn't working. After thinking it was the clutch master/slave assembly and things still being off we yanked down to the clutch...
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View attachment 347152
Somehow the old pilot bearing ended up in the clutch/clutch plate. The new one was where it was supposed to be and was perfect.
I'm thinking we broke down here at one point.
We have no idea how it happened beyond maybe disorganization, but figured I'd share as a reminder to double check your system and every part going back on.