In Judea, it was impossible to separate church and state, so to speak. Herod and the priesthood were just different faces of the same politicotheocratic establishment. Jesus was apolitical, attacking no one in power, yet His message was considered revolutionary because it was genuinely reformist of Temple practice. He was judicially murdered by an occupying imperial power pandering to a rabble roused by the provincial state. He did not rouse it.
Today, a movement led by such a figure in America would be infiltrated by federal agents and eventually destroyed by police action. Its leader were he to remain undiminished in his effect regardless of such suppressive action would be killed off book. He would not be executed by order of a court because his case would never make it to court.
Essentially, then, there is little difference between then and now. Those who pose a threat to the establishment are dealt with. So it has been in all societies, throughout history.