So I ran my second playthrough as a thief going out of my way to do anything and everything I could, taking my time exploring the game, looking for eggs and glitches... (this included running the game minimized when I wasn't playing and running multiple instances of the game simultaneously.)
I was very impressed by how stable the game was, given the conditions I ran it under I would give the game an overall AAA rating in stability. I experienced ONLY A SINGLE crash, after leaving the game running overnight, closing my laptop, opening it back up (forcing a windows password request) then going directly to the kraken. As he approached I saw bubbles in the water, then the game stalled out right before he emerged from the water.
As you can imagine this style of play caused a lot more stress on the game and I was able to find a decent number of glitches and bugs. Most of these I posted already, but for whatever reason as I continued the game in this matter the layering seemed to glitch out more and more and Rohem seemed to walk on top of buildings and other textures he was supposed to walk behind (especially on the tobacco/general goods shop page).
So here is a recap of the bugs I found (Minus the ones I posted before)
Well everything else has been mentioned and discussed elsewhere in the Tech Support pages.
As I say, AAA on stability!