On 13 March 1569, Charles was captured by the Catholic forces at the battle of Jarnac. Later that year, he became Bishop of Comminges, then officially
bishop of Lectoure
The former Catholic Diocese of Lectoure was in south-west France. It existed from the fourth century until the time of the French Revolution, when it was suppressed under the Concordat of 1801.atholic-Hierarchy]">Lectoure (Diocese) Henry tried to establish him as Roman Catholic Archdiocese of Reims">archbishop of Reims in 1591 but he was unable to remove the ecclesiastical see from the control of the House of Guise.
Following Philippe Desportes's refusal of archiepiscopal seat of Rouen, Charles, who was quickly ordained a priest, was elevated to Roman_Catholic_Archdiocese_of_Rouen#1400–1800, Archbishop of Rouen in 1594. In 1599 at the behest of his half-brother Henry, he officiated the wedding of his half-sister Catherine de Bourbon and Henry II, Duke of Lorraine. After briefly making a suggestion to hold the ceremony privately in the king's study, Charles, being overruled, performed the ceremony as instructed.
He kept his position until his resignation in 1604 in favor of Cardinal Francois de Joyeuse. In 1604, he became Abbott of Marmoutier, and was buried there in 1610.