Okay so I have everything manually backed up, my docker apps are broken because the xml in the config folder is corrupt. This is something I can fix with a reinstall of the docker app. Unfortunatly I still can't use the flash backup app. If needed I can upload fresh diagnostics, I don't think anyone has actually looked at the ones I uploaded before. If I knew where to look I would do it myself, so if someone can point me toward which logs to investigate I will look further into the flash backup.