Oh, right, yeah, I see. That makes sense. (Although it sure is disappointing!)
No, it means you'll have to manually tweak those user settings to make the screen cooler (mainly reducing red and increasing blue), then calibrating again on "Native".
Darn it. Thanks for letting me know.
I can't fix it tonight, but in your case it doesn't matter. You said you've calibrated a lot of times, so all you need to do is flick to one of your other profiles, then back to the current one.