Actually, two different and maybe non-compatible wishes:
1. One player may choose his coulour before the beginning of the game. Teams could choose shades of the same colour
1.a Why don't make team shades an automatic beahviour? (Team A shades of red, Team B shades of green and so on.)
2. MORE IMPORTANT In each moment, from the intelligence pane a player may choose which colour to represent each of the other players, in order to keep chromatical order between friends, foes, allies and so on, and have a instant glance of the geopolitcal situation in a map.