Bouquin also served as cathedral preacher in Bourges, but he lost this position in short order due to his Protestant convictions.
In June 1560, he participated in a disputation with Saxon Lutherans from the court of John Frederick II on the Lord's Supper, chiefly against Johann Stössel.
He also participated in the Maulbronn Colloquy in April 1564, a debate with the Lutheran theologians of Württemberg, chiefly Jakob Andreae, over the presence of Christ in the Eucharist.
He supported the doctoral promotion of the Englishman George Withers at the University of Heidelberg in 1568, which in part helped to ignite the controversy over church discipline between the Calvinist disciplinist party and Thomas Erastus.
[2] When Frederick III died on 26 October 1576, his son Elector Louis VI returned the Palatinate to the Lutheran confession.