Unresolved R1 printing midair Z endstop errors

I recently inherited a robo 3 r1, it wasn't working at all besides turning on. After flashing it to the v3 June 2015 firmware it works nearly as intended however I am getting Z endstop hit messages and the printer will print midair. The auto bed leveling will probe in several locations all of them touching the bed but on the right side two of the locations will probe in the opposite direction ie the ceiling. The remaining probes will be towards the bed. I am wondering how I would go about fixing this. Any help would be appreciated.