In many ways, Unraid is effectively a "clean install" each time it boots. The flash drive contains the archives of the OS, and these are only changed when you change Unraid versions. At each boot, these archives are unpacked into RAM and the OS runs completely in RAM. Think of it as firmware but easier to work with. Settings you have made in the webUI get saved to flash so they can be reapplied after boot, and plugins are loaded. So there isn't much different with a new install except plugins and dockers would have to be setup again. If you suspect a problem with any of those you can just remove them.