Henry Wilkinson (1610–1675) was an English clergyman, in the Commonwealth period a canon of Christ Church, Oxford, Lady Margaret Professor of Divinity, and member of the Westminster Assembly.
He appealed to the Long parliament, and in December 1640 was restored by the committee of religion of that body, who ordered the sermon to be printed.
In 1646 he was one of the six preachers despatched by the Long parliament to Oxford, where he was chosen senior fellow of Magdalen, and deputed a parliamentary visitor.
He was well known around London as a preacher, and when he died on 5 June 1675. either at Deptford or Putney, his body was conducted by many hundreds of persons to Drapers' Hall, and thence to its burial in St. Dunstan's Church.
He was the son of Henry Wilkinson ("the elder") (1566–1647), by his wife Sarah, and was born at Waddesdon, Buckinghamshire, on 4 March 1610.
According to Anthony à Wood Henry married 'a woman called the lady Carr,' and in his will he mentions one son and two daughters.