This seems to be a bigger issue where logging out on an elevated (non-terrain) surface often results in logging back in either one, or several floors below, or sometimes beneath the building, standing on the terrain, and stuck in that space.
Doing this on the crashed ship (Rify) usually results in you loading in a floor lower on each logout/login (tested above the bridge, after 3-4 logins I was on the main deck floor of the ship).
I've also seen several issues where people have logged out and appeared in a sealed room below where they can't open the door.
Once logging out on the very front of the ship at Rify (Titanic-style) I logged in and I was floating in the water below.
I try to always ensure I'm standing on terrain when I log out now.. it's just not safe otherwise.
Some buildings seem solid though.. when I log out in the school I'm always where I was when I log back in.