Tremec TKX conversion in A-body!
Based on the last picture, I would guess you have the wrong ball stud mount on the bellhousing. If the z-bar were higher on that end, it sure looks like it would all clear. Plus the angle the z-bar tube is coming into the ball stud looks tweaked.
Or maybe the ball stud mount location is wrong on the bellhousing?
Either way, I would look at the mount first.