My experience is the big end is the issue and needs to be RESIZED. The mating surfaces of the cap and the rod are cut tapered and puts the bolt in a bind when torqued. This causes the I.D. to vary .001" or more just by loosening and retorquing the bolts. Throw a straight edge across the mating surface and you'll see daylight on the inside.
I've personally seen this on Eagle and Manley H beams.

I agree w/ what BradH said also...even on the ones that are cut straight, the big ends often aren't round.