In 1545 Xavier requested that an inquisition be installed in Goa in order to try and punish anyone who had converted to Catholicism and later apostacized. This inquisition would be established only in 1560, several years after his death, but it would be a terrible one. While records were destroyed after the inquisition was formally abolished in 1812, it is thought that more than 16,000 people were brought before it. Many of these lost their lives while many more received lesser punishments in a time so notorious that
Voltaire would write, "Goa is sadly famous for its inquisition, which is contrary to humanity as much as to commerce. The Portuguese monks deluded us into believing that the Indian populace was worshiping the Devil, while it is they who served him."
The Reformers protested against Rome’s false gospel and the Roman Catholic Church responded by entrenching herself in her doctrine and by beginning a great wave of persecution against Protestants. The rift has never healed and, until Rome abandons her unbiblical gospel of grace plus human effort, it never will.
Link (here) to the blog of Reformed protestant Tim Challies