I am thinking I missed something major lore wise somehow.

I am still going through the questline, but is there a reason we cannot kill the leader of the illuminati?

Cause he just came up to me, out in the open at the camp, with only two guards, talked about his unstoppable evil plan, and then just walked away.

Why did I let him do this? Why did I not just walk up and kill him and his guards right there? They are a clear threat. They are activating a primal that could wipe out the planet if it became mobile.

So I can only assume I missed some dialogue or earlier comment/note that said "If you kill the leader of the illuminati the planet will explode" or something to that effect.