On one of my characters I was unable to find some items in the silver palace that had been there for the others (the stuff in the little cell area (NW corner, main floor). Perhaps it only exists if you get it before going upstairs?
The group of hunters that try to capture Shadow showed up twice in a row (once in front of the Tinkers and once near the Ravine).
Meepo goes aggressive if you don't talk after he makes his comments. I saw the subtitles from his talking, but kept exploring elsewhere. When I came back he attacked and wouldn't talk.
Found multiple Ruriks. On arrival in Saltmarsh brought Rurik into his smithy (1 in party, 1 out). He got glitchy, wouldn't talk, wouldn't let me save. I dropped him from the party, and then brought him back (still glitchy) so I dropped him. Went back into the smithy and saw 2 Ruriks. Both were able to join party (2 Ruriks in party). Does he have clones...

(Piney Bluff quests can't be completed) I went to Piney Bluff after fighting the smugglers and I can accept some quests, but can't complete them - The captain of the guard won't let me discuss what I need to, etc.
The 3rd lever in Saltmarsh mayors house disappeared after untrapping (can't unlock that door without it)
This one isn't a bug (I think it isn't) but where is the second key in the ravine to get to the dragon priest? (I "warped" past the door when I couldn't find the key)
I also noticed various mapping issues (doors that don't lead anywhere, invisible passages - ie you can't see where you are walking, inconsistent door indicators - someplaces don't have anything; others show a rectangle above the wall and others show an arch where the door should be).