Clutch adjustment help needed!!!

It sounds like either the pilot bearing was in cocked at an angle or the input shaft is in at an angle or misaligned. That would cause the pilot bearing to 'grip' the input shaft and keep the input shaft turning even when the clutch was disengaged. That would explain both the scoring AND the fact that the gears were grinding; the engine and transmission were never really getting disengaged.

Possible problems: pilot bearing bushing, input shaft too long for crank recess/bellhousing, trannie not evenly bolted up to the bell housing, etc. It'll just take a lot of checking and measuring. I would first measure the distance from the trannie face to pilot area on the input shaft, and then measure the bellhousing surface to actual pilot location with everything apart, including bellhousing. Ditto for the end of the input shaft and the depth of the crank hole.

Make sure the trannie is being supported while the bolts are being drawn into the bellhousing and the trannie weight is not handing on the input shaft while being installed.