Have you performed a file validation check (while making sure you disable virtual cache)?
Unfortunately, this isn't something that validating files can fix. Those 'affected' assets are packed into compressed files for distro, so if there was a fundamental problem with the assets themselves it would have to be there before packing. If a compressed distro file was corrupt and needed reacquiring, then none of the assets it contained would even be loaded by the game.
This issue does appear to be down to how the game engine is loading assets under certain circumstances, not the assets themselves. Otherwise they wouldn't load perfectly while located in or around the carrier or, in this case, in darker locations.
Appreciate the suggestion though.
Also, test various carrier's interiors (or layouts if you have more than one)
I have tried the 'Victory' layout, default 'Drake', and default interior and 'Extraction' interior (I'm using Research currently). Unfortunately, these changes have no effect on the issue.
Again, thanks for the suggestion.
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SergMx does seem bang on the money with this. It's bizarre, but lighting is causing it.

FWIW, the star in this system is a K class. Park near it and I get random misalignments. Park well away from it, those stop happening.
I haven't seen this issue before seeing this thread, and would you believe the next time I logged into the game it happened to me. It is quite rare because as I said not really seen it before, just coincidence I suppose, I don't think you jinxed me OP!
I sincerely hope I haven't.
