I understand that the line of authority between church and state is sometimes skewed (in instances of bizarre religious practices especially), but that does not change the fact that the law reigns supreme over religion. At least, in what you actually can do in this world.

Separation of church and state does not indicate that churches exist outside the rule of law, only that the state does not affiliate itself with any one church. How this is so grossly misinterpreted is beyond me.

Churches cannot stone people just because they're adulterers. They cannot punish those who don't wear single-fiber cotton as the bible indicates. Church and biblical law is not supreme. Moreover, the church is a private institution subject to the laws of the land. In not allowing gays to marry, the church is discriminating. For too long, churches have hid their homophobia behind the power of doctrine and it's simply wrong.

I challenge you to quote me the line in the constitution that says the nation doesn't have a right to enforce the law when a private institution breaks it.