Yeah. I think because of how video games are and the medium they inhabit that a game's "story" and plot and characters are often based on surface level reactions to emotions or experiences within the game and we are seldom trained to do any deeper reading of a story past whether a character is crafted or the story beats make sense in a "wow" kind of way. This isn't to say that people who don't like the game's story or plot or anything "don't get it" or aren't smart enough to; far from it, there are many reasons one could not like what the game is doing or prefer the way Nier told it's story and what it was telling. It's moreso that we simply don't get kinds of stories like Nier: Automata often in video games and as a result it's not something we read deeper on often.
For example, I would say that the plot and characters of Last of Us are fucking incredible and the interplay of character motivations and emotional moments spurred on by what we know of the people and the world they inhabit make it especially effective. It's also capable of some incredibly subtle storytelling as one might be able to tell from the end of it having some great interpretations.
...but all of that comes from very surface level stuff, no deeper meanings or anything, just A+B=C interactions where you can see characters emotions and characteristics work to make events happen. Everything that people love about the game is from events directly happening in the plot that you watch and see. There's no deeper reading involved.
Nier: Automata isn't like that. You have to put in work to really connect and extrapolate and thematically understand why things are happening that may not be an A+B=C interaction. It's more like...A(1+2)+B(3/4)=C to the tenth. It's just...there are...god, I hate using this term, higher functions that work behind the scenes that process the things that are happening.
I don't really care if people call me pretentious, I don't much put stock in anti-intellectualism that seems to sweep the community as if everyone dumping on plots and characters in games read Umberto Eco novels and complex essays on Heidegger's "dasein" existing within Portnoy's Complaint.