bevinator: All of the items that are incompatible with each other are listed in the ITEMEXCL.2DA file, which should be in your override folder. Adding or removing items to that file will affect whether they give the error ingame. I would suggest leaving the actual "X of Protection" items on the list, though, because those really ARE supposed to be exclusive, but this way you can still wear them along with armor.
You can edit the file in Notepad. Each line is an item code, followed by a 1. Just delete the lines for items (below the "VALUE" line, don't mess with anything above that) you don't want to be exclusive. In my copy, I just left the lines for CLCK01, CLCK02, CLCK31, RING06, RING07, RING25, RING41, and AMUL14... those are all the rings, amulets, and cloaks of protection, so those work like before. You may want to make a backup of the file just in case.
Thanks for the tips, that sounds easy enough, I'll give it a try.