His projects were akin to those of Robert Owen of Lanark but were avowedly Christian. His first book, published in 1819, entitled Remarks on the Practicability of Mr. Owen's Plan to improve the Condition of the Lower Classes, was dedicated to William Wilberforce, but met with slight acknowledgement. His next publication was an anonymous work in 1826, The Revolt of the Bees which contained his views on education. Hampden in the Nineteenth Century appeared in 1834, and in 1837 he added a supplement to the work, entitled Colloquies on Religion and Religious Education. In 1830 he delivered a lecture at the London Mechanics' Institution in defence of the Sunday morning lectures then given there. This was printed together with A Letter to the Bishop of London suggested by that Prelate's Letter to the Inhabitants of London and Westminster on the Profanation of the Sabbath. Morgan presented petitions to parliament in July 1842 asking for an investigation of his plan for an experimental establishment to be called the Church of England Agricultural Self-supporting Institution which he further made known at public meetings, and by the publication in English and French in 1845 of The Christian Commonwealth. In aid of his benevolent schemes he printed Pestalozzi's Letters on Early Education, with a Memoir of the Author in 1827 ; Hannah More's Essay on St. Paul 2 vols. 1850 ; and Extracts for Schools and Families in Aid of Moral and Religious Training 1851. He also edited in 1849 a translation of an essay entitled Extinction du Paupérisme written by Napoleon III, and in 1851 The Triumph, or the Coming of Age of Christianity ; Selections on the Necessity of Early and Consistent Training no less than Teaching. In 1850 he reprinted some of his own and other works in thirteen volumes under the title of The Phoenix Library, a Series of Original and Reprinted Works bearing on the Renovation and Progress of Society in Religion, Morality, and Science ; selected by J. M. Morgan. Near his own residence on Ham Common he founded in 1849 the National Orphan Home, to which he admitted children left destitute by the ravages of the cholera. In 1850 he endeavoured to raise a sum of £50,000. to erect a Church of England self-supporting village but the scheme met with little support. He died at 12 Stratton Street, Piccadilly, London, on 26 December 1854, and was buried in the church on Ham Common on 3 January 1855. Besides the works already mentioned, he published:
