Complex sentence: He was condemned to prison for the Inquisition due to 33 counts of malfeasance and the practice of Judaism in 1660, without having ended his administration (so he was replaced this year in his government), being arrested in 1663.
Split into simpler sentences: He was condemned to prison for the Inquisition due to 33 counts of malfeasance and the practice of Judaism in 1660, without having ended his administration. So, he was replaced this year in his government and was arrested in 1663.