You literally transmute matter at will, you do not need to fight Killcannon just turn his robot arm into cheese or something. Your nemesis is a villain that you do not need to consider the whole cannot effect living tissue thing for even a second. That is all.
Their weaknesses are a) Ragnars b) scourge virus c) sensitive inner ears. Unless I’m missing something, none of those are something Eve can exploit.
Even can manipulate atoms, correct?
Everything is made out of atoms.
What if Eve turns all viltrumites into water or something?
Conversely, the inner ear thing can be exploited by making a lower pressure gas be the gas inside the ear behind the membrane, or just turn some of the air in their ear canal into water and then squeeze until their ears pop.
What if she just somehow I dunno create a sonic boom anywhere she wants in the air. She can probably manipulate the pressure waves.
Eve can’t manipulate living things due to a mental block, I don’t think she is restricted from creating/rearranging organic matter.* Don’t we see her alter/create plant matter?
One weakness you missed, the toxin from that one flower, is just a chemical compound which is her whole thing. As someone with an innate understanding of chemistry, I don’t think her mental block would prevent her from creating matter as sharp as a Ragnar’s claws or as tough as their hide. I don’t see why she couldn’t create a synthetic form of the scourge virus (though I doubt she would ever do that one) or the flower toxin.
EDIT: *By which I mean, organic matter that isn’t currently living.
Technically a virus is kinda no alive.
Forgot the laser gun that never stops. She could possibly recreate that but we do not know how they work so they could be some kind of magic/beyond eves power.