I think this is essentially bug 1728912 - maybe you want to read and/or follow that.
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Thanks for the reply, seems like the same issue indeed. Do you happen to know how to target that tooltip, or know it's selector?
I can't remember of the top of my head, but I seem to recall the custom highlighter is inserted to the end of the dom in targeted window, so maybe you can find it just from the inspector.
But I don't think it will do you much good because it sounds like you would need to modify native c++ code to make the changes that would allow the current highlighter implementation to work with panel or popups. At least, that's how I understand it.
Thanks again; I kinda managed to target the highlighters' css with force by js, but it's getting too much trouble at this point.