The aircraft could fly empty to arrive at airports near outbreak areas, then be used as a hospital after it arrives and the pilot disembarks. Once the hospitals in the area gain some ability to control the outbreak, remaining patients can be sent to local hospitals, the aircraft can be decontaminated and left to sit for some period of time, and the aircraft can move to the next region.
Also, considering Boeing was anticipating FAA approval within weeks, it's fair to assume that the MCAS problem has been resolved. (https://www.reuters.com/article/us-boeing-737max/boeing-737-...)
If it were truly necessary, you could also set up an airtight septum to separate the contaminated part of the aircraft from the front part that includes the cockpit. There is an aft door (as well as emergency exits) that can be used to access the rear of the aircraft.