HOW ARE THEY SPAWNING!?

My game is seemingly bugged and I dont know what's causing it. In the first image a Nuerothrope spawned in when I already have 2 armory data's since I collected the servo skull and killed the previous terminus but a second terminus spawns in? In the second image a Nuerothrope spawned in even though the mission was Decapitation, a mission I know or at least think can't randomly spawn terminus level enemies.

I am INSANELY confused about it and desperately need answers.