D'Aguilon was born in Brussels; his father was a secretary to Philip II of Spain. He became a Jesuit in Tournai in 1586. In 1598 he moved to Antwerp, where he helped plan the construction of the Saint Carolus Borromeus church. In 1611, he started a special school of mathematics in Antwerp, fulfilling a dream of Christopher Clavius for a Jesuit mathematical school; in 1616, he was joined there by Grégoire de Saint-Vincent. The notable geometers educated at this school included Jean-Charles della Faille, André Tacquet, and Theodorus Moretus.