That won't happen if you use the GraphicsConfigurationOverride.xml file, instead of the base file afaik.The app above will also allow you to restore your chosen colored GUI when the game updates, which will reset your HUD colors.
Seems a good place to link to this definitive thread which has been the de facto reference for most of us
The Definitive List of HUD Color Configs
Thankyou ! I've added it to my post, for anyone else coming to this thread.That's the old thread. There's a newer one here: https://forums.frontier.co.uk/threa...he-1-7-2-2-compatible-hud-matrix-list.434053/
(albeit that it also seems to have become neglected)