John Ratcliffe (1549 – December 1609) was captain of the Discovery, one of three ships that sailed from England on 19 December 1606 to Virginia to found a colony, arriving 26 April 1607. He later became the second president of the colony which later became Jamestown. He was killed by the Pamunkey Native Americans when he was going to trade with them in 1609.
Ratcliffe was born in Lancashire. Many people say he used the alias John Sicklemore, but this was never confirmed. He served as a seaman before going to Virginia, and he may be the Captain Ratcliffe taken prisoner with Sir Henry Cray and Captain Pigott at Mulheim in 1605.
Ratcliffe commanded the Discovery and became a councillor of the Jamestown Colony. The Discovery was the smallest of all three ships; it only had a crew of 21 men. He became president of the colony upon the deposition of Edward Maria Wingfield on 10 September 1607. Ratcliffe was a wise and insightful president, but he fell out of favour with many colonists after enlisting men to build a governor's house. Many colonists also disagreed with how he handled trade with the natives and how he performed during the food shortages during the summer of 1608. Ratcliffe was removed in July 1608 and succeeded by Matthew Scrivener. During the administration of George Percy, Ratcliffe was sent in October 1609 to build a fort at Old Point Comfort, which was named "Algenourne Fort" after one of Percy's ancestors.
Ratcliffe worked with explorer John Smith to remove Edward Wingfield from the presidency because he was hiding food for himself that the colony needed. Ratcliffe was elected president and asked Smith to organise work details and expeditions to trade with Native Americans. By January 1608, only 40 colonists were alive, and Ratcliffe and the Council planned to return to England on the Discovery. Ratcliffe's overgenerous trading provoked Smith to complain that they would soon run out of items to trade. Ratcliffe left office (either by resignation or deposition) in July 1608, two months before the end of his term. At that point, Ratcliffe had lost the faith of the colonists, who accused him of hoarding rations. The colonists were also enraged that as they were sick and dying, Ratcliffe ordered they build a capitol in the woods. The colonists dubbed the project "Ratcliffe's Palace." Ratcliffe accompanied Christopher Newport when he sailed from Virginia in 1608. In May 1609, he commanded the Diamond, one of the ships in the Third Supply fleet of Sir Thomas Gates.