First, don't worry! Along with the rest of your profile, favorites and messages are stored on SCRUFF servers--they have not been lost or deleted!
If your favorites and / or messages are not appearing in SCRUFF after upgrading to a new version and you do not see a "Loading" spinner in the center of the screen, just pull down to refresh the Favorites or Messages grid(s)--whichever is affected. This will pull your messages and favorites down from SCRUFF servers.
If refreshing the grid does not do the trick, you can force a refresh of all profile data to profile by performing the following:
- Open SCRUFF
- Select Settings
- Select Device and tap "Clear Device Cache"
- An information dialogue will appear. Tap "Clear" where prompted
- When processing has finished, close SCRUFF from iOS multitasking
- Re-launch SCRUFF