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Firstly, this command only deletes tags whose Questions have been deleted, ie removed from the database. If the Question has been marked deleted (ie not visible to users but still visible to administrators in the backend interface) then tags pointing to this question are still valid, so the tag will not be deleted.

So that's possibly why you see the "Did not find any" message.

That being said, the way the database transactions are handled could be improved. I'll submit a patch.

I was able to recreate the problem by having no tags in the db. However, it may also occur under other circumstances, eg if some exception occurs during command execution.