Ahh, ok, that makes more sense. Still having trouble reproducing though: once I've picked up the clothes again, the jacket is equipped in the armor slot for me. Any chance you have a save from just before picking it up that will demonstrate it happening? All the clothes pick-up locations are referencing the same one chunk of code, so they should all work the same. Not to be annoying, but are you sure you're checking equips and not items?
Viewing post in Bug Reports Thread - Version (0.5.1 to 0.6.2 (Content Pack 1))
I think I see what my problem might have been. When I downloaded the newest version of the game, I just dropped everything into the existing folder, replacing everything with the newer version (I wasn't sure where the saves were being stored, and didn't want to lose them). I deleted my game and did a clean download and it looks to be working as intended.