This has been a total pain in the butt.
I know he had to modify the bracket for the shifter to get it to work.
I have not driven it yet. I just had it installed last night
So today I Goggled the numbers to make sure it was in fact a Saginaw and not a Muncie.
and that is when I came across photos showing the linkage looking completely different.
Is this even the correct linkage for my 4 speed Saginaw?
Casting # 3925656
Tailshaft # 6261884 GM2

Here are several pics I took of the trans before he put it in.
Saginaw pictures by AmysLair - Photobucket

 

Your 3-4 rod is installed upside down, and looks like it might have been bent funky to clear the other two arms.