Good Post,,, couple questions,,,, the bracket that is off 1/2 inch, you say factory ford or PC? I always assumed that PC took the 450, cut off the van body, except the front, added brackets for support items, genie, tanks, etc, and added to the frame to lengthen if needed... Do they actually move the bracket holding the drive shaft? I can not imagine why PC would move this,,, seems to me this is a Ford problem.
Second,,, since the shaft is not perfect, are you risking some type of drive shaft failure in one of the joints since you are putting stress on them? Even though you do not hear the vibration at lower speed, still stressing the shaft, brackets, joints etc I drive that speed 58to62 and know it would bother me,,,
good luck
sparky