The config-store is the heart of the GIS Server. That should be backed up at a minimum. Were I the one planning the backup strategy, I'd use the ArcGIS Server backup utility to do the actual backup of the GIS Server, and then add the backup location (where the output backup file is placed) to your enterprise backup strategy. [h=1]Backing up and restoring your ArcGIS Server site configurationhttp://resources.arcgis.com/en/help/main/10.2/index.html#//015400000619000000