Following a short period abroad, Jordan resumed his naval career in 1650, was a flag-officer in the First Anglo-Dutch War and a member of the expedition against Algiers and Tunis under Robert Blake in April 1655. He was brought into service again in 1664 and served as a flag-officer in the Second Anglo-Dutch War, 1665–7, knighted in 1665 after the Battle of Lowestoft; was rear-admiral of the Red squadron, with George Monck, 1st Duke of Albemarle, in the inconclusive Four Days Battle, 1–4 June 1666, and vice-admiral of the Red at the victory in the St. James's Day Battle, 25 July 1666.