Rogue Threads Due to Prior Forum Delete Failure

I have 1000's of rogue threads that are not attached to a forum due to an issue where my previous delete jobs got messed up. Basically when I deleted a node with a bunch of threads, it was supposed to delete all these threads with it but it failed. I couldn't seem to resume the job so I had to just try and delete it using the batch thread updates feature.

Is there a proper way of dealing with this?

My php run jobs keeps timing out too.

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