You can contact firstname.lastname@example.org and they welcome all suggestions.
Sorry to say, but if someone put everything on one level which is what this sounds like, then yes it can be a pain to sort all of this out. I would recommend back plotting each operation then saving the geometry to a level as you do this. I will help you sort out what is doing what and what did what. Then you can track things down a lot easier than what you are trying now.