The Helghast: Had their planet forcefully taken from them. Sent to another planet which basically had a toxic atmosphere. (Or it was the Petrusite or whatever, basically bad voodoo) Went through generations of pain, suffering, and genetic adaptation to just be able to live properly on a harsh planet, and came back with a decently good and effective plan to reclaim Vekta.
That's not even mentioning how nearly every Vektan and ISA/VSA soldier i've seen is basically a jackass at best. Not to mention genocidal jackasses at worst.
I mean, not even the hilariously bad, and cartoonishly evil writing for several of the Helghast characters can convince me their worst then the ISA/VSA/Vektans or whatever. Humans. Yeah.
The Locust: Another species losing their home. Hell, as far as i've seen, and even in gameplay, the Locusts are far more capable of co-habitating with others of their same species then humans. They're also far less obnoxious and have interesting technology and vehicle systems that use organic creatures instead of oodles of death goop.
And again, their counter parts are just hideously disgusting people who, by their own actions and stupid bickering, make me want them to die.
The Snake Lady in Arkham Origins: She had Batman dead to rights. And I mean, super dead. She cuts people later then Batman and they die before him, and he even fights her, increasing circulation and should have spread the poison faster but no, Batman's like jesus or something.
And here's some that don't get reasoning: Wesker/Umbrella. The big dudes from DA:2. Haythem. Lucy. Grigori. Zeus, Ares, Sisters of Fate. (Anyone whose not Kratos). Hazama from Blazblue. The Russians.