He was the eldest son of the diplomat Sir Henry Chamberlain, 1st Baronet, by his second wife Anne Eugenia née Morgan.
Admiral Chamberlain married (1) Elizabeth Jane (d. 29 August 1856), daughter of the naval officer, traveller, and author Captain Basil Hall, R.N. They had issue:
- Basil Hall Chamberlain (1850–1935), a Japanologist.
- Henry Chamberlain (1853–1923), a Lieutenant-Commander in the Royal Navy.
- Houston Stewart Chamberlain (1855–1927), the natural historian and author (more accurately described in the Oxford Dictionary of National Biography as a "racialist writer").
Admiral Chamberlain married (2) 29 October 1872, Sarah Morgan (d. 29 December 1921), daughter of Thomas Holroyd. They had a daughter, Harriett Sarah, who died unmarried on 17 March 1939.
Reference: Burke's Peerage, Baronetage and Knightage, edited by Peter Townend, 105th edition, London, 1970, p. 516
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