Origin version does not appear to do anything. Checked and double-checked it running properly and run as administrator. It does appear to be aware the game is running, at least!
Also, to acquire an origin version, all you need is the product key and enter it into Origin, and it will accept just about any EA-related key to a game. I input several games I had on Steam into Origin just because and it accepted all except older titles. No additional purchase necessary!
Hmm turns out the older trainer works fine on the origin version. Well it seems to be working fine at the moment. I also logged my EA account out of the game, I dont know if that does anything but now I'm cheating again only down side is that the add skill and ability points still doesn't work. As long as I get my unlimited items I'm happy.
Also I haven't thoroughly tested this, so I'm not liable for any damaging using the old trainer may cause.
NOTE: you need the trainer version dated for 2/5/2012, all the trainers currently posted are 2/7/2012.
Really stupid that Origin is preventing purchase from these guys, EA deciding not to take someones money? sounds ridiculous if you ask me :/.