Sorry for double post, but this is still a large problem. I don't know if I'm doing something wrong, since it doesn't seem like other people are having the same issue. Here is a log of it happening in a regular Rift. My other log files are too big to upload; will update once it happens again.
I've never caught the bot skipping a boss, just see the end result of the bot running back and forth on the last level of a g/rift with the Guardian on an earlier level. The worst part is that exp/gold timer doesn't kick in for some reason, so its stuck there permanently until I manually stop it.