You are making the most common of mistakes, confusing the secular authorities with an organized religion. The magistrate may be a Congregationalist but that does not mean the faith made him do it. Catholics make this mistake when complaining about treatment from Protestant authorities and vice a versa. But the people who are most likely to make that mistake are those who do not like organized religion at all.
You're very confused. In theocratic 17th century Massachusetts, there was no distinction between secular and religious authorities. All the laws were based on the established religion, and violations of religious requirements were strictly enforced by the governmental authorities with the full support of the clergy. And if you're trying to claim that Roman Catholic Popes are "secular authorities", you're completely hopeless.