I fully expect one day to turn on my Nook to find out the OS has been updated and what I have is just a very nice eReader with everything gone. What are the backup options for a rooted nook with an SD card?
Currently there is a working full backup and recovery but its a little buggy at the moment and I won't advice using it at this time. For now, most of us back up all of our apps just in case an automatic update wipes our NC.
Use the following tutorial to restore your apps after a flash. You can also use it in reverse to back up your apps.