I had similar issues when I'd rip with HB using the AC3 passthru (which forces the m4v extension). Then I'd change the m4v extension to mp4 so my ps3 would play it. Itunes would play it fine, but apple-tv would have nothing to do with it, either streaming or syncing. Granted, this was a year ago, and I've not attempted to use the ps3 again, so I've not bothered with the extension changes. Prob not what you are doing, but just something that happened to me in the past.