Juan Bonilla may refer to:
Juan Bonilla (baseball) (born 1955), Puerto Rican baseball player Juan Bonilla (bishop) (1636–1696), bishop of Ariano, 1689–96 Juan Bonilla (soldier) (fl. 1860s), Dominican Republic revolutionary Juan Bonilla (writer) (born 1966), Spanish writer Juan Crisóstomo Bonilla (1835–1884), Mexican general Juan C. Bonilla (municipality), a municipality in Puebla, Mexico