Damn, turns out dehumanising the enemy only goes so far, and eventually even your SS officers start to have a crisis of conscience. The only solution, to finally fix this problem should be to organise a way to do the slaughtering while allowing these soldiers to avoid personal responsibility, perhaps herding their targets into some kind of large oven or something, and have one guy lead them in, another guy push the button, and a third guy remove the remains, that way, none of those three guys can feel guilty, because they're only following orders.