Give them a day one which it is going to be done and tell them the floor needs to be clean and all the furniture removed from it-plus they can't walk on it for a set period of time until the floor is dry-probably a day or two.I'd also make sure you increase their rent because my guess is when it comes to replacing the floor AFTER they move out, you aren't going to recoup what you expect from them. 

Deals are being done every day long after a market has "dried up".

Chad I find these NE states to be quite complex compared to the west coast states that are really cut and dry when it comes to these issues..

(3 by 6-foot hole in dry wall; Garage access door complete broken off with damage door frame, the main entrance door way frame is broken and need to be replace, damage to the rear entrance door frame as well).

Then move forward with a restoration company or trusted contractor who can help you dry out the place starting tomorrow (or ask your existing contractor for recommendations).

I don't know if it is called "efficiency" when you have a studio within the unit (without a new construction outside the property) B) Or, do you apply to the city for converting the duplex into an official triplex (replacing the door with a dry wall)?

This house is conveniently located near coffee shops, dry cleaners, playgrounds, sit-down restaurants, art galleries, scenic Shawnee Park, the Shawnee Golf Course, Kroger grocery store, banks, museums.

Even so, the poor quality of work done in this house does make this figure less cut and dry. 

To do that I could cut a hole in the dry wall and turn it 90 degrees so people can use it from the hallway but there is a light switch for a nearby bathroom in the way so that would need to be moved into the bathroom as well.

When installing new ones in a gut reno, run the finished floor all the way underneath them, so if there is a leak, if flows out and can be seen and fixed, vs. soaking into the subfloor and rotting it.