Hey OP, you're not gonna get a better answer than this:
Because this is a deconstruction of that trope. It's not just that Taro Yoko likes girls, it's that culture glorifies beauty. Our history is full of expression of beauty in female form, and androids throughout the game were made for that in particular.
So his answer to the question here is that he likes girls, but it is borne out in-game as "humanity likes girls," and that is undeniable. The Venus of any particular time is a window into what beauty was to those cultures. It is fitting, then, that the sexualized beauty that is 2B and A2 and YorHa in general, and all of the other androids, bear that same standard of beauty as we have today, as cultural norms stopped changing after the White Chlorination stuff.
Androids were designed to serve, and serve humans they do. But the androids do not know beauty, they cannot understand, explicitly, the abstraction that it is. So they continually pump them out. They are the same. Over and over and over and over again. Beauty for humans' sake, for they do not understand it. Beauty for our sake, as we do. The androids' designs are what they are because they are pleasant to look like. And I have absolutely zero doubt that it was on purpose, but plenty 'only' because "Taro Yoko likes girls."
2B was made FOR the controversy, as an addendum to it, a representation of objectification. And her presentation throughout the game is exactly that. Objectified. They were given form to please humans. They fight and kill and die to satisfy the urges that were programmed into them, to serve humans. But there are no humans. Bereft of that context, they continually make androids that look like the quintessential abstract that is beauty as it was, before humanity went effectively extinct. They do not know better.
Yoko Taro doesn't pose an answer to this, here. He only poses questions. And critique involves establishing in words what he does in abstract.
And the reason I know that is the question posed to 9S. "You want to **** 2B, don't you?"
But it's made clear to the player (well before then, but maybe not immediately), what "****" doesn't mean. To the outsider, and to the player immediately seeing it, they would think "****" means "fuck," but the androids lack that capacity, they do not know what that is. They might understand, at an academic level, how babies are made, but lack the cultural context to turn "sexual intercourse" into "fuck," or even turns "Sexual intercourse" from something we do for its explicit purpose (make babies) to something that we do for recreation. But that furthers Taro's goal. YOU think "fuck," because you, like all humans, sexualize things as a matter of course. Maybe it's not women, maybe it's not men, maybe it's just an abstract. But culture as it is has sex fully ingrained within. The robots do the same thing near the beginning of the game. Baby cradles, rocked gently. They don't know why. Banging their would-be-groins against other robots. Copulation without context. Or perhaps, with context, but bereft of culture.
9S sees "kill." Because killing feels to them as fucking feels to us.
The reason people don't get up in arms about 2B is that it is not the same as women being sexualized and objectified in media. It is the very abstract of that objectification and sexualization. It makes those who don't care see exactly what they always see.
It makes those who might ask themselves questions about what sexualization means.
It makes a person post a forum post asking why this is okay, but everything else isn't.
And that's why nobody gets up in arms about it.
tl;dr, He knew people would be pissed off about it, he knew people wouldn't for ~reasons~, and he knew people would talk about it, and that conversation about our culture of objectification was actually the goal.