In 1777, due to continued financial concerns, Hooper resigned from Congress, and returned to North Carolina to resume his law career. Throughout the Revolution the British attempted to capture Hooper, and with his country home in Finian vulnerable to British attacks, Hooper moved his family to Wilmington. In 1781 the British captured Wilmington, to where Cornwallis and his forces fell back after the Battle of Guilford Court House, and Hooper found himself separated from his family. In addition, the British burned his estates in both Finian and Wilmington, so Hooper was forced to rely on friends for food and shelter during this time, as well as nursing him back to health when he contracted malaria. Finally, after nearly a year of separation, Hooper was reunited with his family and they settled in Hillsborough, North Carolina, where Hooper continued to work for the North Carolina assembly until 1783.