In 1550, the first friars of the Order of San Francisco arrived in Baena under the patronage of Doña María de Mendoza y Sarmiento, wife of the first Duke of Baena. Thanks to her support, the church, cloister, and convent were built, although the current structures date from the 17th century.

The church, with a single nave and transept, is covered by a barrel vault with ribs and lunettes. The walls are decorated with paintings featuring elaborate rocaille ornamentation, giving the entire space an impressive look.

The main door of the temple, in a simple style, was built in the 18th century. It is flanked by two Tuscan pilasters and has a lintel. The other entrance, located on a side street, is even more austere, dating from the 17th century, with a complete pediment and pyramid-shaped pinnacles.

The main altarpiece, carved in wood and polychromed, dates from 1740. In this church, the image of the city’s patron saint is venerated.