He was maybe a singer ("mozo de coro") in the Cathedral of Segovia (1578-1579). In 1591 he was chapelmaster in Trujillo (Cáceres) and went to León to participate in the exams ("oposiciones") for the position of chapelmaster of the León Cathedral. Marcos Esteban de Castro was chapelmaster at Ávila Cathedral from December 1603 onwards; he was still working there in 1611, according to Bourligueux (1970), p. 172.

The known works by Francisco de la Huerta are found in "papeles sueltos" (particelle) and not in choibooks. He has been incorporated to this database, since he was an important chapelmaster in different cathedrals and at the Monastery of Santa Ana in Ávila; he obviously had direct contact with the books of polyphony and with the performance of that repertory in the institutions where he worked.

The main part of the extant compositions by Huerta are preserved in the Pamplona Cathedral and in the Monastery of Santa Ana in Ávila, but there are also pieces by him preserved in the cathedrals of Ávila, Astorga (León), the Collegiate Church of San Miguel de Alfaro (La Rioja), the Royal Collegiate of Roncesvalles (Navarre), and the Monastery of San Lorenzo de El Escorial (Madrid).