In 1882 a fresh round of prosecutions was under way when, at the deathbed request of Archbishop Tait, Mackonochie resigned from St Alban's to move to St Peter's, London Docks, the church founded in 1866 by C.F. Lowder. Though by 1882 the mob violence that Mackonochie had faced during his time with Lowder in the 1850s and 1860s had abated, the prosecutions continued. Despite the vibrancy of St Peter's Mackonochie was extremely unhappy: he had moved from St Alban's out of a sense of duty. He missed his old parish and his self-confidence was waning. By July 1883 he faced yet another suspension. In December, knowing his suspension would be disastrous for the parish, and only a year after resigning from St Alban's, he handed his resignation to the Bishop. Unlike his resignation from St Alban's, his friends almost unanimously supported this resignation, knowing it was required for the good of both the parish and of his health.