I had an issue similar to this on the Versant 80. Registration used to be dead on but was drifting bad on the back side. They changed my whole registration assembly with no luck. So we started testing and found it was only doing it from the high cap feeders. The machine trays ran fine. It turned out that all that was needed were new feed tired in the high cap tray. They old ones did not even look that bad but were slipping just enough to make it skew.
We have two. Both drift significantly day to day but running an alignment profile brings it right back. Usually dead on for text weights and very close on cover. We usually run an alignment profile every time we change paper. After that it's decent throughtout the run even with long runs. Not as consistent as a Ricoh's were. If you can combine the auto alignment of the xerox with ricoh registration it would be perfect.
Our first machine we got did have problems similar to yours after about a month. Engineers came out and tons of parts were replace and they couldn't get it. It was extremely inconsistent and we were maxing out the alignment profiles. They replaced the entire machine because it was taking to long to figure out. I guess after they got it back in the office our tech figured it out. I don't know what it was but I can ask next time I see him.
My 2100 is terrible on registration. It had been spot on but with 1.8 mil clicks it is bad. They have replaced all mechanical part. Still not good. It may start fine but then it will leading to trailing edge. It has been quite a while since you posted this. Any chance you recall what it was. My techs are puzzled,.