I have the new 60HE v2 ISO Split setup with a Mod Tab on my Capslock for the FN1 Layer. I am on the latest beta(Wootility v5.3.0-beta.2; Keyboard v2.12.0-beta.3) but this Issue was present on the last stable Version aswell)
I noticed, that i could not change the lighting indicator on any of my profile, for when Caps is enabled.
I believe there is a bug, that stops you from changing the indicator when Mod Tap is configured for the Key.
My Solution was to remove the Mod Tap for Capslock, saving the profile, changing the Color of the Indicator, then readding the Mod Tap. Now the color is displayed, which I picked before enabling the Mod Tap for Capslock again.
It´s my first time, therefore sorry if i posted in the wrong channel. I hope I can help someone with the same issue and maybe help to improve the software. Love the Keyboard!