This is a centuries-old Baroque church founded by the Augustinians. The Franciscans eventually took over. The British soldiers were said to have built the church in its present design in 1762-1764 when they occupied the Philippines.
On May 3, 1935, fifty-two members of the Sakdal Movement were killed in the church by constabularies. The Sakdalistas launched an attack against government targets, mistly in Bulacan and Cavite in a bid to effect a nationwide revolution. In Cabuyao, the Sakdalistas retreated into St. Polycarp Parish and refused to surrender, prompting the constabularies to launch an attack.