In May 1619, Fell was made a canon of Christ Church Cathedral, Oxford and in 1626 Lady Margaret Professor of Divinity, which he held, according to custom, with a canonry of Worcester Cathedral. These posts he held till 1637. At first his religious views were Calvinistic, but he changed his opinions and became an active ally of Archbishop William Laud. Laud promoted him, making Fell to the rector of Stow-on-the-Wold in 1637, Dean of Lichfield in January 1638, and Dean of Christ Church in June 1638.[2] Fell continued with improvements in the cathedral and college projected by his predecessor, Brian Duppa, and added the staircase leading to the hall.
Active in Oxford University affairs, on 15 August 1637, Samuel Fell wrote to Laud about the excessive number of alehouses in Oxford, but on more than one occasion he was rebuked from Laud for setting his authority as head of a college in opposition to the proctors and other public officials of the university. On the outbreak of the Civil War he became a conspicuous royalist, and, after serving the office of vice-chancellor in 1645 and 1646, was reappointed in 1647.[3] Soon after his reappointment the parliamentary visitors came to Oxford. In September, Fell was summoned before them; he declined to attend, was imprisoned, and on his release in November was deprived of all his offices in the university. He retired to the rectory of Sunningwell, near Abingdon, which he had held since 21 September 1625, and died there on 1 February 1649. He was buried in his church.
