Franciscan apostolic college governance

The Franciscan apostolic college of San Fernando in Mexico staffed the missions of California, then resembling an apostolic prefecture . Since it was a Franciscan college they presumably owed some kind of allegiance to the Order of Friars Minor in Assisi. I'm not sure if the college would have interacted with the Archdiocese of Mexico. The head of the college was called a Guardian. Did he follow a Franciscan rule book separate from canon law? Did he report to any superior?