The only big 2 are Mysterious tower (killed the golem and only 9th sephirah left) and Vizima confidential.
I think with Vizima confidential game bugged, preventing me from completing it. Journal says to gather info from Leuvaarden, but when I try to talk to him, the only 2 possible dialogue choises are "how's bussiness" and "farewell". I read that some kid should talk to you about finding something, but been walking half a hour around the city and no boy appeared. Last time I've saw the detective was when he got attacked in his house and after saving him, he went into hiding. Meanwhile there is a quest related to Shani about talking to her...returning the favour or something, but been visiting her at the hospital and in her room but nothing has changed