He gets on the phone to Sam and Jesse, who are getting checked in at the gate in their borrowed guard uniforms. You know, in the middle of a prison riot. Michael hides Juan in one of those giant wheeled laundry bins that come in so handy in prison breaks (they really need to start making those out of clear plastic) while telling Sam the new plan.
Sam calls Hill to have him get word to Cruz that Michael and Juan are hiding in the infirmary. Where Michael has just entered, and has gotten to work MacGyvering a little welcoming party for Cruz involving oxygen, ether and rubbing alcohol. Cruz and his guys are quick to arrive, and Michael uses a dental butane torch to light the alcohol he poured on the floor, which leads to the oxygen tank he just tossed in their direction. The place gets blown to shit, of course, but as always the explosion is just large enough to only knock out the bad guys without killing anyone. Sam and Jesse arrive a few seconds later, and Jesse takes in the devastation and dryly says, "Yep, this looks about right." Sam can't resist quipping, "I guess Cruz finally got a taste of his own medicine," but he at least feels bad about it. They load the unconscious Cruz into the drug locker and haul him out while Michael dials Agent Harris. "You said to call if there was trouble?" And Michael is nothing if not obedient.
In some empty warehouse, Cruz busts out of the drug locker, grabs the gun left for him on the floor nearby, and runs outside, only to find the entire Miami-Dade police force waiting for him. Lucky for our guys he doesn't decide to go down shooting.
Harris and Lane walk Michael out of the prison, wrapping up the plot -- an escaped prisoner, guards taking bribes, and all manner of mayhem. They ask if Michael had anything to do with it. "You really want to know?" Michael asks them. I think we all know the answer to that question. Both questions, in fact.