Francis Willoughby (1613 – April 10, 1671) was the son of Colonel (1588-1631) of London, England. A merchant and shipwright, he immigrated to Charlestown, Massachusetts on August 22, 1638 and served as selectman (1640-1647), representative in 1649 and 1650, and was elected an assistant (representative in the colonial assembly) in 1650, 1651 and 1654. Willoughby returned to England in 1651 where he was appointed commissioner of the navy at Portsmouth and served in the Third Protectorate Parliament in 1659, representing Portsmouth. He returned to Massachusetts in 1662 and was deputy governor from 1665 until his death in 1671.
- Salisbury, E. Elbridge (1892). Family histories and genealogies: A series of genealogical and biographical monographs on the families of MacCurdy, Mitchell, Lord, Lynde, Digby, Newdigate, Hoo, Willoughby, Griswold, Wolcott, Pitkin, Ogden, Johnson, Diodati, Lee and Marvin, and notes on the families of Buchanan, Parmelee, Boardman, Lay, Locke, Cole, De Wolf, Drake, Bond and Swayne, Dunbar and Clarke, and a notice of Chief Justice Morrison Remick Waite. With twenty-nine pedigree-charts and two charts of combined descents. New Haven: Press of Tuttle, Morehouse & Taylor. pp. 524–525, 548.
- "The 'Fathers of the Dockyard'". History in Portsmouth. Retrieved 19 September 2017.
- "Yale Indian Papers Project". Retrieved 19 September 2017.
- Greenwood, Isaac J. (1876). ""The Willoughby Family of New England"". The New England Historical and Genealogical Register. Boston: David Clapp & Son. 30: 72–76.
- Frothingham, Richard (1845). The history of Charlestown, Massachusetts. Boston: C.C. Little and J. Brown. p. 141.
| Deputy Governor of the Massachusetts Bay Colony