MC-up is a server wide backup system i am currently working on, it will support multiworld & other plugins.
The main difference between this and other backup plugins is its flexibility, you can choose to sent backups to remote servers via FTP & to networked computers & local discs.
It has the ability to backup the config for other plugins, it currently supports : Essentials, Regios & Worldguard.
Each packed file will be layed out in a way that is (hopefully) easy to understand (e.g. worlds / config / players / regions / logs).
I am aware that this info is brief but i will update it once i have a build out.