I don't know if anyone else has ran into this, but you can't go through Roldbthar more than once.

Deep in the dungeon is a puzzle that has you remove human limbs and dwemer struts from cogs to un-clog them.

Well it's been some time and for a quest I needed 10 dwemer cogs so I've decided to go back into Roldbthar and everything is reset.
That is, untill I got to this puzzle. The puzzle is reset, the door is shut, the cogs are re-clogged. But the problem is, it didn't set the human limbs and dwemer struts back into the clogged cogs. So they're stuck... with nothing obstructing them and there's no way to unclog them.

So basically once you get back to this spot after it's reset it's un-passable and you have to turn around and redo the entire dungeon backwards.

So I just wanted to report this, I hope someone sees this and maybe it'll be an easy and small fix for a patch.