Kern is consistently against art daring to have a political message. Or he doesn't think games are art. It's never been clear. But his stance effectively reduces to that games should never present a moral (what he calls "political") challenge, no matter how anodyne, to a player, and he's consistently legitimated the idea that these moral challenges include "a game, somewhere, is not explicitly made for a majority-straight, majority-white, majority-male audience."
That Kern is on the side of decency on this particular issue is to his credit; he spends most of his time on Twitter contributing to the open-sewer effect. In the calculus he has exhibited since contributing to the original flare-up of "ethics in game journalism" he's made it pretty clear that Call of Duty "oo-rah" and carting out the drone strikes is apolitical but a game focusing on a homosexual relationship is political (because such a game "shoves it in the face" of that majority audience by dint of its existence), so make of it what you will.