Ok, so I've wrote a small app that receives remote notifications that I handle in didReceiveRemoteNotification and I also check the userDict passed to didFinishLaunch.
However, the notifications is sill listed as "unread" in the notification-center on iOS 5 (there is a tiny blue dot to the left of them). How can I make it so that after a user has clicked a notification it either goes away, or it's marked as read?
I don't think there is a way in iOS 5.0 to only remove one entry. Quoting iOS SDK Release Notes for iOS 5.0:
Springboard
Push and local notifications for apps appear in the new Notification Center in iOS 5. Notification Center displays notifications that are considered "unread.” To accommodate push and local notifications that have no unread status, set your application’s badge count to 0 to clear that app’s notifications from Notification Center.