I docked a ship to a station and it stayed there through weeks of gametime and quits and restarts of the game. Eventually, it was time to undock and go home. So I right-clicked on the joined ports. Only the station's docking port had an "undock" option. I clicked it and the option went away, but the ships remained joined together. Trying to separate with torque rotated the whole assembly. Trying to separate with RCS made all thrusters on both ship and station fire. IOW, they were still functionally joined, not simply stuck together somehow.
I looked in the persistence file and the 2 ships are still listed as 1 Vessel, as expected. Both docking ports say "state = Disengage".
So, how do I fix this? Do I need to edit the persistence file? If so, how?
Thanks.