I hate this article... because of what it represents. We aren't talking about a huge company that has made a boatload of games and hates women. The question asked to Ueda is LOADED - there's no answer that will satisfy those who care about it. With the pretext that all of his games feature male leads, what can he say? What could he have said that would have gotten an "Ah, makes sense, that's smart." He didn't use women as protagonists in his few games... as have many developers, for whatever reason. His answers weren't good, but quite frankly, the premise to me is entirely flawed and he should never have had to address that question.
This is gotcha journalism, but it's worse, because it's fabricated, it's a non-issue because a couple of d-bags want to stir up controversy. Was it a wide problem that people wanted to see addressed? I've never heard ONE person even bring that point up. Stuff like this devalues IGN or anyone else that engages in it. Much of eastern Asia is still awfully traditional (to their detriment), but why is the main character of Yakuza or a million other titles not a girl? It's just not what fit that particular story. Are there biases? Probably, even inherently in the minds of some creators, just like some women are biased in favor of themselves. It's just human nature to some extent in certain people.
To turn this into some kind of an issue is beneath solid journalism and was a waste of a character count. Purely my opinion. I'd have felt just as excited about The Last Guardian had the protagonist been a woman or non-gendered alien. Let's revel in the game itself rather than wallow in nonsense.