I have similar experience with lenses that look very clean. Sometimes they have been dropped, or their is something wrong with their optics.
Carl Zeiss Jena used concentric rings for the alignment of the individual element in many lenses. (Biometar and Flektogon for example) Even though the lenses had been cut and ground to meet the optical center within certain tolerances. Some lenses have been cleaned and disassembled afterwards to clean a sticky aperture, without the right testing equipment to put them back together. Meyer Optik used set screws under a 120 degree angle for the rear group of the Oreston and Pentacon 50mm lenses.
Even when elements have been ground to their optical center properly, they have to set and seated when tightening the rings that hold them. And yet I sometimes wonder how accurate a front focus lens can be, where the entire front element rotates to focus.