While returning to my ship that was parked on a hillside from an excursion on Minmus, the vehicle bounced far into the air. After dramatically catching up to it and boarding it (while it was still falling towards the ground), I decided my time here was done. I then tried to reach orbit and return to Kerbin, but the game was weirdly shaky. After looking around, I noticed that the ship was still landed according to Kerbal Engineer Redux. I then rashly decided to go to the tracking station and return to see if the game would fix itself, alas this caused the ship to become inoperable, including button presses, and EVAs.
I have images of this that I can offer, if it will help.
Please fix this issue, I personally have to create a new game now because I now lack Valentina, and Bob Kermin (Jebediah is stuck in orbit around Minmus and I'm too lazy to retrieve him)