Was the T/O bearing seal bad, or was sealant not applied during initial assembly?
If you're in doubt about the cleanliness of the friction components, it wouldn't hurt to clean them. Hopefully you got lucky and nothing splashed onto them.
I believe the clutch should have a label (or imprint) showing which side faces what -- just look closely at it. I haven't taken my SPEC 1 out of the shrink wrap yet to take a close look at it.
If using regular Synthetic ATF, you should add TWO OUNCES of Ford's friction modifier. If you're using something like Redline MTL, then it already has the stuff in it.
