About the same time movies stop pretending little guys can take on big guys with the power of heart. *shrug*
To be fair to your core argument, I don't think the "but it's a fantasy" rebuttal really addresses your point unless it's a feature of that fantasy world that men and women are equally strong. Ideally, movies, games, and books should be logical and consistent according to the rules set up in their universes. At the same time, if you're going to shrug off other inconsistencies that break the rules of that world, why make unrealistically strong ladies your sticking point? It's like thinking a pubescent Robin is fine as a sidekick for Batman, but Batgirl is a bridge too far. And if James McAvoy can play a tough guy action hero, then anyone can.
The same goes for games. The number of people you kill in the average action game would be both horrifying and laughably unrealistic taken at face value. If a twig like Ezio can overpower and murder not just one hulking brute but hundreds over the course of a game, then why not Lara Croft (especially badass OG Lara)?
If you're going to go after girls for being unrealistically tough in games, your next target had better be all the weedy models with perfect hair running around with swords the size of airplane wings (looking at you, Cloud and Dante) or punching out dudes with more training who are also several weight classes above them (take that Nathan Drake and all AC protagonists). Either be consistent in how you call bullshit, or just let it go.