Presumably it is normal when an airline goes bust but with continuing operations as with MAEL that assets are vested in ATT?
If so then I don't then I don't think there is much of a regulatory conflict. ATT will operate at 'arm's length' from CAA HQ. It's fairly common for government departments and similar to own/fund such bodies and the outfits themselves are very protective of their independence.
As to the use of NDAs I don't know enough of the facts to comment.