I am working through several color calculation options that will be part of my style module. I will let folks know when it is ready.
Yes, UIKit's use of default, primary, secondary, muted provides a lot of color options.
My interest is in being able to offer option for selecting up to three colors and having caluclations to provide adequate palettes for each, including UI contrast concerns.
And yes, those highlights are part of the issue, as well as highlights/focus color changes on certain inputfields, and yes, there are buttons that appear in different places with either reno coloring or default coloring (like the delete button in certain areas).
Likewise, the alert color schemes don't always necessarily fit well with different color schemes. That's what I am experimenting with at the moment.