If you define that there are only 2 genders, it's ammunition for homophoboes, transphobes etc.
Actually, trying to suppress 'hate facts' does much more to empower actual bigots (and I need to specify 'actual', due to the very common usage of *phobe to mean disagreement with ideology).
Biological sex is essentially binary (strongly bimodal). Having people who don't fit exactly into either sex doesn't mean there are additional sexes, nor does it justify any discrimination based on that.
Agreed, that's why it's good to include marginalized communities in media, so they are shown as part of the "team"
They are not part of the team if they are perfect, can do no wrong, and if you don't like them, or the media in question, it can only be because you are a bigot. I think that was kind of the point of asking for overt politics not to be inserted into the game.
And the thing is; whenever someone disagrees with a bit of media, be it book/movie/show/game, they will start looking for agendas they disagree with and say 'This is why it sucks!'.
There is media which arguably does suck, though, specifically because of an agenda being pushed into the story. If there is pandering to the 'woke' crowd, the characters tend not to have any faults, so do not grow/evolve, etc. Bat Girl gets captured and tied up, exactly like Batman? That's misogyny. Spider Woman in a classic Spiderman pose? Sexual exploitation. Because it is hard to write perfect characters, the characters around them are generally just written worse. Apparently in Game of Thrones, the last season or two, without the books to go off of, having strong intelligent female characters meant the men became useless idiots and blacksmiths needed to be told how to make armour and that (X seasons later) winter was coming.
All changes will face backlash, especially from conservatives. Lots of conservatism can be summed up by - "yeah it's bad, but it's bad I know so let's not change it".
For someone arguing against discrimination, that seems like a less than charitable interpretation of an opposing position (unless you figure no change can be bad, or the consequences ever be worse than issues an existing situation may have).