Hmm, not easily. Our calculation for dark mode logos is based on whether the whole color scheme is considered dark, and for that we compare the brightness of the primary and the secondary color. That calculation happens here in the code.
Your use case doesn’t quite match that scenario, though. You could write a theme override of the logo that defaults to the dark one, but then you’d need users to switch themes as well as color schemes… tricky. I’m guessing you want to allow users to select multiple color schemes, right?