I have the ultra edition in Epic Games Launcher.
I entered a Citadel mission, defeated the scylla (paralyzed) and evacuated all soldiers. The first mission complete screen comes up with experience gains, however upon continuing it took me to the last autosave instead of the geoscape “mission won” screen.
I did go back and killed the scylla, with no change. The mission was a clear win, with lots of turns of paralyze. I have repeated it three times and can provide a save. I have the console enabled but have not used it on this save.