As long as you leave the setting on default you'll get green for romulans, blue for federation and reddish for klingon.
Any other setting will change it for all factions into that setting.
FSM grant me the serenity to accept the things I cannot change, the courage to change the things I can, and the wisdom to hide the bodies of everyone who pissed me off along the way.
Kinda late reaction but...
Thanks for the default option.
It was weird to have green fed characters (UI I mean).
Lets hope they will change it so we can select it for every single character.
It is probably on the "to do list".