Ok, so I had the bug with Benryn's avatar not going away, so for science and tried several options to check what is causing this. Which flag in the game triggers this bug. The results:

Benryn can be saved if you lift the wooden beam or by attacking it and destroying it.

If you lift the beam, it doesn't matter if Benryn lives or dies. His avatar is stuck and won't go away.
[Linked Image from 64.media.tumblr.com]
[Linked Image from 64.media.tumblr.com]

If you destroy the beam, it doesn't matter if Benryn lives or dies. His avatar vanished as it should.
[Linked Image from 64.media.tumblr.com]

So, it seems lifting the wooden beam is somehow causing this.

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I have also experienced a bug regarding Counselor Florrick. I had to destroy the doors to the room she was trapped in to save her. Counselor Florrick can run out when the door is destroyed, BUT Tav gets stuck, and I wasn't able to run after her. I received a message saying she is out of range instead.