The following message is counted as a reply, which is not right.
"This topic was automatically closed 45 days after the last reply. New replies are no longer allowed."
It makes tracking replies to a topic difficult in topic listing page, where "This topic has 1 reply" could mean 1 actual reply from a user or there was no reply to the topic and it was automatically closed after topic expiry period.
You should up date to the latest 3.2.0.beta1-dev or 3.1.0 Stable versions.
Those are the small posts and I usually just delete them manually. Deleting doesn’t unlock them and corrects the count. I am pretty sure you can run a rails rake task to delete them all. But back up first and be careful if you do it this way.