Riply now, Riploid, since she merged with black goo, a hybrid xenomorphic alien humanoid, with Ripley DNA? Who knows who she is, but she has an human touch to her. Call on the other hand turned out to be a WYC synthetic, without a doubt, she sabotages zion with the black goo, and is able to spawn xenomorphic cyborgs, that eventually get inside the machine city, and take over the world, destroying everything, the Matrix, the fields, skynet. That all happened, seamlessly overnight, like in space nobody can hear you scream. It would seem that, Narus was build on the premise, of staying arrogant, so whatever version it is running on, it quickly gives in to the superior one, and gets assimilated fast. This leaves Ripley as the only human survivor on earth. She quickly understands that the black goo is relentless, and keeps, growing and gaining on her. She then hides and crawls the surface of earth, on whatever is left, keeps fighting the xenocyborg alien, as it proves to be the perfect organism.
This fight now turns into something similar to Doos and UAC/Hell. Just one protagonist fighting a world filled with aliens.