[blykins]

No spacer needed here as it's a standard length TKO bellhousing with an RM-6056 Quicktime.

At least he's finding more clues though.

Here's a couple of thoughts that I have:

The portion of the input shaft where the pilot end meets the splined end is hitting on the pilot bushing, or the bearing retainer on the trans is hitting the pressure plate. A couple of quick measurements can rule both out.

He's already measured to make sure that the pilot end is not bottoming out in the crank, and a pilot bushing is thicker than 1/4", so I think the pilot is still in the bushing, even when he scooted the trans back.