I've completed Wael's quest, and shoved the scroll under a Dragon Skull, much good may it do the next person who stumbles across it. But, it appears to have pissed off the entirety of the Hall of Revealed mysteries, as they appear to want my head. I went back in, and my last save is from several hours ago. Is there any way I can calm them down through console commands/teleport elsewhere?

Hi Harbin,

 

I posted about this here: 

http://forums.obsidian.net/topic/72968-parable-of-wael-bug/?hl=wael

The hostile flag probably triggered if you stole the book before getting the key from Grimda. It has nothing to do with burying the scroll. Hope you have an earlier save.

However the actual stealth, door entry is bugged, that's why we were so surprised everyone was so pissed off. Hope it helps.