There definitely are some conversation flags that need to be fixed, not a huge deal compared to the big story reveal scenes, but I think they should be easy to fix anyways.
1. Talking to Devella Fountainhead at the barracks you can say "I killed my sister" before you even have the duel with Orin.
2. On one playthrough I was nice and helped Alfria, the next playthrough I was kind of a jerk to her. She still came to my camp all "You inspired me by helping me!" even though my character didn't help her with her song.
3. All the dialogue options that say "I'm a child of Bhaal" or anything similar before you have the Bhaalspawn reveal.
4. And yeah I agree with the Baldurian dialogue options, they make no sense if you have amnesia. Your character doesn't even remember where the Temple of Bhaal is at first.
