If the barrel would be locking up tighter on 1 frame than the other, that would be a good reason it would differ.
Headspace could change very slightly, although I think the lockup question would cause accuracy probs. more.
Give it a try and let us know. You may have to have a barrel that really shoots to see any difference, the frames will need the same grips, as different grips will cause some varience.
Good luck.