The rods don't always fit the barrel bores closely so sometimes a picture like you are showing doesn't indicate poor alignment. If the rod is straight and not bent, and is just about squeaking into the bore, then it probably would indicate poor alignment.
The AAC cans with the holes not in the center of the suppressor can represent properly manufactured EDM bored silencers. Silencers which have cores that are comprised of 7-15 or more parts welded together often are not straight after they are welded- even if they are pressed into a straight outer tube. That is the whole purpose of EDM- if the welded can was perfectly straight there would be no need to EDM it to straighten the bore to the bullet flight path.
Conversely, EDM cuts true to the settup. So if the operator didn't set it up right that could also be the source of the eccentricity. So nothing is perfect, and EDM itself doesn't guaranty perfection.