but again, will that affect the accuracy of the rail mount? I have no idea. Any thoughts?
Well, there is no way that the optic rail was aligned with the barrel if the trunion was in crooked.
If they put the trunion in straight this time, then there is a chance that it will align with the rail, elevation-wise. As I said before, windage isn't something you can adjust in the rail as it just sits flat against the receiver wall. You haven't lost anything, and it may align well. (I don't believe very many AKs were built with a whole lot of care to setting the rail perfectly from the factory. Usually, (IMHO), they were good enough, and then the scope was adjusted to compensate.)
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Now, the issue I'd be concerned with is HOW they fix it.
When building a AK sometimes the receiver shell is drilled out before hand for the rivet holes that hold in the trunion. A more precise way sometimes used is that they are left blank and marked and drilled by measuring the trunion itself carefully and/or using it as a guide, so the trunion is straight in the receiver shell when the rivets are placed and set.
If the rivet holes were drilled out of place in the receiver shell such that the rivets held the trunion in crooked, how do they plan to fix that?
The very best way to do that, and save the receiver shell, is to weld the holes back up, grind the welds flat and redrill new holes.
The worst way is to try and clamp the trunion in as straight as possible into the shell, then pound the new rivets in the old holes, and set them hoping they'll squish into the misplaced shell holes and hold the whole thing straight during assembly and maybe even when the gun recoils.
Alternately, if the holes in the trunion are misplaced, are they going to adjust the holes in the receiver to match them so that the trunion sits straight? Or toss the bad trunion and install a new one?
Probably the best bet is to dump the receiver shell and build the gun again on a new one.