I think this has been on their list since the first HUD mods on PC emerged. They are getting there, but from what I understand the way it's coded right now, they can't do that efficiently. There are things that has to stay the same colour no matter what scheme you'd choose to avoid confusion.
But generally I very much support the idea. I love custom HUD colours, but I always end up returning to the original one, because of things like having to remember that friendlies are white and enemies are silver, no knowing whether the influence mission effects are positive or negative, etc...
I would love to be able to select it from the game, instead, yes.