In the following year Bancroft was made a prebendary of St Paul's; he had been canon of Westminster since 1587. He was chaplain successively to Lord Chancellor Hatton and Archbishop Whitgift. In June 1597, he was consecrated Bishop of London; and from this time, in consequence of the age and incapacity for business of Archbishop Whitgift, he was virtually invested with the power of primate, and had the sole management of ecclesiastical affairs. Among the more noteworthy cases which fell under his direction were the proceedings against "Martin Marprelate", Thomas Cartwright and his friends, and John Penry, whose "seditious writings" he caused to be intercepted and given up to the Lord Keeper.