You can use iExplorer to back up an individual app's settings.
iExplorer 2.x is free (3.x, the current, cost around $40 or something).
You do *not* need to be jailbroken. iExplorer (and similar programs) will allow you to browse the mobile user's file system and copy the /Documents or /Library folder from an app.
This allows you to back & restore individual app settings even if you do a full wipe and set up your device as new.
Restoring from iCloud works the same as restoring from iTunes.