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Pretty much what the title says. While playing in career mode, I noticed my throttle during ascent was being adjusted as if the "Limit to terminal velocity" was enabled, even though the Utilities module was still locked and not visible on the menu.
I can also confirm that this happens. It seems when switching from saves, certain features of mech jeb can stay enabled, with no way to toggle them from the current save if they have not been unlocked.