He was the fifth of nine children, and had five sisters: Isabel, Leonor, Catalina, Mariana, and Ana[a], and three brothers: Baltasar, Miguel, and Gaspar.
The elder Luis de Carvajal may have heard suspicions of his sister's family practicing Judaism in secret, and brought them to New Spain, possibly hoping to save them from the worst of the Inquisition.
[9] He joined the rest of his family, with the exception of his brother Gaspar, who became a Franciscan friar, in practicing Jewish faith in secret.
[11][12] In 1589, his sister Isabel was denounced as a Judaizer (the term used in the Spanish Inquisition for crypto-Jews practicing Judaism in secret), and was tortured until she gave up the names of her family and several others.
[17][13] Luis de Carvajal the Younger was executed by garrote, then burnt at the stake on 8 December 1596, in an auto da fe in Mexico City.
Ana was also accused of practicing Judaism in secret, and was garroted and subsequently burnt at the stake in April 1649, at about seventy years of age,[b] in an auto da fe in Mexico City.
[22][23][24] Ilan Stavans dramatises Luis de Carvajal the Younger's life and struggle as part of his work El Illuminado.
[25][26][27] The writer Sabina Berman's play En el nombre de Dios (In the Name of God) dramatizes the lives of the Carvajal family.
[28] The movie El Santo Oficio (1974) directed by Mexican director Arturo Ripstein features aspects of his and the Carvajal family's life during the inquistion process.