Luis Carrillo was, from November 1567 to about July 1568, royal commissioner with Alonso Muñoz for the inspection of the viceregal government of New Spain for King Philip II.
When New Spain Viceroy Luis de Velasco died in 1564, the cabildo (city council) of Mexico City informed Spain they did not want another viceroy. Word that the Council of the Indies in Spain would not agree to make encomiendas permanent led to a conspiracy to make New Spain independent of the mother country. In 1565, Martín Cortés, Marquess del Valle, son and heir of Hernán Cortés, and Luis, another son, were the leaders of this conspiracy (the Conspiracy of 1565).
The plot was discovered and suppressed, and some of the conspirators, including the sons of Cortés, were arrested. In 1566, before the arrival of the new viceroy, Gastón de Peralta, marqués de Falces, the Audiencia had had two conspirators beheaded. These were the brothers Alonso and Gil Gonzales de Avila. The Audiencia had also sentenced Martín and Luis Cortés to death, but the sentence had not yet been carried out. Upon his arrival, Viceroy Peralta reviewed the cases and suspended the death sentences against the sons of Cortés. They were sent back to Spain to be dealt with by the Council of the Indies. The Audiencia denounced the new viceroy for his leniency with the rebels.
Conflicting reports sent back to Spain led to confusion in the Council of the Indies. The Council proposed to the king that he send a special commission to the colony to investigate the situation and bring actions against guilty parties, up to and including the removal of the viceroy. By a royal edict dated June 16, 1567, Philip II named a commission consisting of Licenciado Gaspar de Jarava, Licenciado Alonso Muñoz and Doctor Luis Carrillo. The first two were from the Council of the Indies; Doctor Carrillo was an official in the Court.