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There is no way to disable the greay bars/backgrounds that comes with the subs. On iOS 6 the subs seem to be like the Netflix subs (ie no grey bars).
 
Yeah, but at the moment the iOS 6 Beta1 puts all subs on the top of the screen instead of at the bottom. The Beta is also a bit unstable from what I could tell, and thats why its called a Beta :)

hmm so i update atv to ios6 will they disappear ?
 
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