I put the new bearing in place and bolted the flywheel back on, lining up the timing mark. I didn't have a clutch alignment tool, but I had a plan. First, I put the friction disc and pressure plate on and only made the bolts finger tight. I had a 10mm deep socket that fit almost perfectly in the pilot bearing so I used it with an extension as a center. Then I aligned the disc by sight to get close. Once it was close, I put the bellhousing back on to use the actual input shaft for final alignment. I carefully, remove the bellhousing again and torqued down the pressure plate bolts.
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With the clutch secure, I put new o-rings on the bellhousing and put it back on the car. What a PITA! It came off much easier than it went back on. It was a struggle so I decided to call it a night. The rest of the assembly will need to wait for another day.