If you must waive the bloody shirt, there are plenty of incidences of Catholic clergy condemning heretics and nonbelievers to death. Tomas de Torquemada, a Dominican priest, was the Grand Inquisitor of Spain, a position to which he was appointed by the Pope. The
Catholic Encyclopedia (
http://www.newadvent.org/cathen/14783a.htm), written in 1911, states: "Most historians hold with the Protestant Peschel (Das Zeitalter der Entdeckungen, Stuttgart, 1877, pp. 119 sq.) that the number of persons burnt from 1481 to 1504, when Isabella died, was about 2000." Most of the victims were Jews or Muslims, given the time frame. Additionally, the
Catholic Encyclopedia notes estimates of higher numbers, which the author of the Torquemada articles regards as exaggerated.
There is blood on the hands of both sides of the religious wars of the 16th and 17th Centuries.