He married Phelipa Muñoz y Serrano de Pamplona.
In 1687, he requested a dispensation to marry Juana de la Cadena Vergara. It was his second marriage. Dispensation source: Guerra, et. al., Index to the Marriage Investigations of the Diocese of Guadalajara, 2-1, p.23.
Agustina Guajardo. She married Juan de Alanis.
Maria de Jesus Guajardo. She married Joseph de Herrera.