That's what I means by "we have to consider the iPhones backdoored". Once you can't trust the device any more, all bets are off and thus we can't be sure that what Apple says they do with that fingerprint is what they actually are doing.
(edit: regarding jailbreaking, I seriously doubt that a sufficiently well-hidden backdoor would be found by a jailbreaker. Or have we found the backdoors in OSX or Windows yet? Since the latest leak, we know they are there)