[1] One account claimed that Guerra had deliberately ridden Cuna down with his horse and killed him, in order to prevent him from reporting to secular authorities.
[2] When questioned, Guerra confirmed his use of beating and tarring as punishments, especially when he found evidence of traditional Hopi religious practice in the form of feathers or kachina dolls.
[3] He denied the additional Hopi accusation that, when using their labor for the weaving of mantas, he provided insufficient material and beat them if they wove too slowly.
He was then transferred to Jemez Pueblo, and subsequently served at several missions in New Mexico, including San Agustín de la Isleta.
When he reached a certain part of the pueblo, they came after him weeping, and saying that they were not to blame, because the governor had commanded them to do as they were doing.In 1661, Guerra was assigned as secretary to Alonso de Posada.