The John Vaughan papers (3 volumes and two loose items) document Vaughan's first two years as commander-in-chief of the Leeward Islands, from November of 1779 to March 1881. The papers comprise approximately 470 items, almost all of which are incoming letters, dispatches, bills, reports, and memoranda from naval commanders and subordinates, officials in England and North America, and friends and relatives in England.
The papers primarily relate to the conduct of the Revolutionary War in the West Indies, and reveal a close coordination between the army and navy in the region. Topics documented include the capture of St. Eustatius, the capture of transports by the French, the treatment of prisoners of war, and the provisioning and paying of troops. Also covered are promotions, discipline, and reports on hardships, such as endemic sickness, supply shortages (food, candles, rum, and money), poor barracks, a lack of doctors and medicine, and bad weather. Of note are the letters from William Mathew Burt, governor of Antigua and St. Christopher's; Gabriel Christie, commander at Antigua; Lucius Ferdinand Cary, commander at Tobago; George Ferguson, governor of Tobago; Commodore William Hotham; Admiral Hyde Parker; Admiral Samuel Hood; George Brydges Rodney, commander of the Leeward Island Station; Anthony St. Leger, brigadier general at St. Lucia; Major Henry Fitzroy Stanhope; and Loftus Anthony Tottenham, brigadier general at Barbados.
- Volume 1, item 23: After March 19, 1780: Memoranda for an answer to Christie's letter of March 18-19
- Folder 1: May 11, 1784: Vaughan's deposition sent to Isaac Howell, for a property dispute involving Edward Foord, Samuel Delprat, Richard Clark, and Simon Nathan, over a lawsuit in Jamaica
- Folder 1: September 29, 1789: Vaughan to an unknown property owner (partnered to a Mr. Alexander Ellis) concerning purchasing land on the Mohawk River
Volume 1 contains 246 items; Volume 2 contains 276 pages; and Volume 3 contains 207 pages.