As a former Disco server admin, I can safely say that it IS possible to restore the bases that were lost without affecting the others as each base has its own .ini file in the server's Multiplayer folder. This could even be accomplished pretty quickly by opening up a backup file from before the trouble began and pasting the backup directory over the active one and saying no to overwriting any existing files (when a base is destroyed its file is automatically deleted). Whether or not they should do this is another matter, but at least I can say it is possible.
