"If the various analyses detect
someone who is not authorized to use the device, it could set off a number of automated features designed to
protect the device's data, suss out the offending party, and
alert the device owner."
My bold
It's aimed at detecting unauthorised users, & then restricting their use. It's not aimed at detecting Jailbreakers. It can see if the device has been Jailbroken, but that could not be sole grounds for "unauthorised use", given its newfound legality. Apple cannot lock you out of your own phone just because you have done something completely legal to it.
One article: "Apple Patents Remotely Disabling Jailbroken Phones"
Another: "Apple may be looking to lock out unauthorized iOS users"
Rather different.