sometimes an (lack of a better description) invisible phantom train stop spawns where the real one is and outputs the color info that the real stop was outputing.
any wires on the real one end up receiving the phantom color data and any from the real station.
i remove the real station and the phantom one prevents me from placing anything where the real stop had been, including a real stop.
i have to revert to an older save or remove the mod temporarily to restore.
this seems to happen often and randomly.
i also use LTN, maybe there is a conflict there?