Nya has that age old problem of confusing pacifism with neutrality. He could very well be Omni or Clan and still embrace the ideals of his org.
What does shooting someone have to do with taking a stance? Politics are in your mind and not necessarily chambered in the barrel of a weapon.
Let me put it this way ... if an armada of pointy fanged and Ian-powered aliens landed on Rubi'Ka and started killing Omni and Clan people and stuck mines in the ground, I would absolutely consider them neutral in terms of everything I know about Rubi'Kan politics.