I agree with this. The show's had strong female characters for decades, if not since the start (not Susan, obviously, but Barbara definitely, and beyond). This burgeoning insistence that the companions aren't as important as the Doctor himself clearly flies in the face of everything the show's been for years.
And, I've mentioned before, there is something sacred in the Doctor being a male role-model for kids (girls and boys) that actively seeks non-violent solutions to conflicts, espouses kindness and understanding etc; traits which are often pushed aside onto female characters and marked as feminine and non-masculine. The alternatives are largely super-heroes, Ninja Turtles, Transformers, wrestlers, Power Rangers and more super-heroes, and while I love most of them, they're all pretty rooted in violence as a catch-all solution.
I think it's important that there are more heroes for girls, especially in science-fiction, but I worry that the Doctor being that female hero is a pyrrhic victory that will sap the will to provide new, tailor made ones. The BBC's had little interest in doing science-fiction outside of Doctor Who for a while now, how much harder is it going to be to get new shows through when the distinctive hook of "female fronted" has been sucked up by the behemoth too?
But most people (not here, but elsewhere online) don't want to hear this, it's all "lol manbaby tears" gloating.