ok! First one that comes to mind is when (at the Sanctuary) you choose between those two choices when The Puffball (forgot his name ¡-¡) shows his amazing nails. So like, i've played this a few months ago (before 0.16), and I remember him giving Rheamus his little gift to the road. When playing again, after that scene, i remembered that he didnt gave him anything this time, so I tried to go back and choose the other line. After that little scene between them, the skip button didnt want to skip the common text (it being that "fight" with Chilas, which i read before going back), so I had to use the "skip unseen text" to get back to where I was.
Does this help? I kinda didnt finished it yet, so I cant actually say if it happens more times after this (atleast, in the new updates).