I remember as a kid playing MGS and feeling weird about a few moments with Meryl and Sniper Wolf. I overlooked them because the game was fun, and those moments were just a small part of a much larger game. Then I played MGS2, and things just got really uncomfortable. For every cool moment there was gross stuff. Pretty much no woman walks out of that game unscathed. Fortune has a stupid design, Olga gets pretty much nothing to work with, everything to do with Otacon's family, and Rose's weird relationship with Raiden. The game was weird and trippy by design, but its treatment of pretty much every female character just stood out to me.
I used to kind of excuse it, just assuming that it was an eccentricity from Kojima, or tongue in cheek, but it has only gotten worse. Even more disappointing is that Kojima gets only more and more deified. He has made some good videogames, but his works have a long history of objectification and misogyny. I doubt he will ever really change, and have avoided pretty much all his games since MGS3.