Getting Your SMS Apps Ready for KitKat
android-developers.blogspot.com
android-developers.blogspot.com
The workaround they suggest - setting yourself as the default SMS app, then unsetting it - seems a bit hacky. I suppose you'll also need to handle the case where a SMS arrives whilst you are doing a restore/backup, and your app is set as the default SMS app.
I wonder if this is a permanent thing from Google, or if it's just a temporary thing until there's a proper SMS backup/restore permission.