My understanding is that that is just "rechecking" the files - as in checking to make sure the file has the expected hash value - it still needs to check the hash value in the torrent because it needs to announce it to the tracker
I just meant if you have 2 clients running and only 1 of the torrents in each you shouldn't have any issues with the client trying to merge them. So if you have torrents that are cross seeding fine you can leave them, and any problem torrents to the second client.
If its the exact file but the torrent is made with different piece sizes it will register separately, If the original uploader wanted to cross seed they probably would have done this. Also there's a "source tag" when creating torrents that can force it to a particular tracker to help with cross seeding.
Yeah seems about right