And by that same token it was proven many times over that the nonreligious can't even tolerate the religious and when they feel empowered enough they go on sprees to genocide them as much as possible.
Sadly true. There exists on both sides people who can and do accept others for what they are and interact with them without trying to kill or convert them all. There are extremes on both sides (all sides?) that feel it is their mission to make everyone see their way is the only way.
Besides the teachings of John to not let unbelievers into your house there is also the teaching that people outside your house are not yours to judge. Do business with them if you want but don't partake in their evil ways and don't let them poison your churches. It's god's job to judge them and sort them out. But they can't help themselves, neither the religious or the nonreligious, they have to have validation as the cost of suffering to others. The goat parable is 100% on point.