iCloud definitely backs up app data. Not the apps themselves, but your personal data for that app (whatever the app developers indicated should be backed up, some stuff like caches that can be redownloaded won't be backed up).
I bought my iPhone 6S yesterday and my phone has been restoring for a full 24 hours and still hasn't finished. Not sure what the problem is.
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I am having the same problem. Was trying to not do an iTunes as my battery has been a bit funny with the new iPhone and thought of my setting through iTunes as I used iCloud once before and worked beautifully don't know what to do. If I should go back to the one I did on the 23rd. But that just means I loose my messages and stuff I like to keep.
I just stopped the restoration process. It was taking too long. All of my apps had downloaded and I was using my phone as I have always, so I'm not sure what it was restoring still. But, now everything is ok. Back to normal.
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