He submitted, however, to the Elizabethan settlement of religion, and was rewarded with the archdeaconry of Middlesex, a canonry at Canterbury and in 1560 with the deanery of St Paul's.
In 1607 he was made vicar of Stanford in Northamptonshire, and in 1608 he became chaplain to Bishop Neile, who in 1610 presented him to the living of Cuxton, when he resigned his fellowship. In 1611, in spite of the influence of Archbishop Abbot and Lord Chancellor Ellesmere, Laud was made president of St John's, and in 1614 obtained in addition the prebend of Buckden, in 1615 the archdeaconry of Huntingdon, and in 1616 the deanery of Gloucester.
Stow archdeaconry is first mentioned in 1138, and in 1291 included four deaneries, while the archdeaconry of Lincoln included twenty-three.
In 1291 Bedfordshire was an archdeaconry including six rural deaneries, which remained practically unaltered until i 880, when they were increased to eleven with a new schedule of parishes.
It gives the real values in one column and tenth parts in another column of each of the benefices in the archdeaconry of Lothian.
In 1845 the deaneries of Charing, Sittingbourne and Sutton were comprised in the new archdeaconry of Maidstone, which in 1846 received in addition the deaneries of Dartford, Mailing and Shoreham from the archdeaconry of Rochester.
The archdeaconry of Lincoln was among those instituted by Remigius, and the division into rural deaneries also dates from this period.
Returning to England towards the close of Queen Mary's reign, he was invested by his mother's uncle, Tunstall, bishop of Durham, with the archdeaconry of Durham, to which the rectory of Easington was annexed.
Hooper did his best in the time at his disposal; but in less than a year the bishopric of Gloucester was reduced to an archdeaconry and added to Worcester, of which Hooper was made bishop in succession to Nicholas Heath.
In 1889 Tunbridge deanery was created in the archdeaconry of Maidstone.