William Henry Lee
Office 1Clerk of the Privy Council
Term start 1July 1, 1867
Term end 1June 30, 1872
Successor 1William Alfred Himsworth
Birth dateJune 26, 1799
Birth placeTrois-Rivières, Lower Canada
Death dateSeptember 11, 1878 (aged 79)
Death placeOttawa, Ontario, Canada

William Henry Lee (June 26, 1799 – September 11, 1878) was a Canadian civil servant and the first Clerk of the Privy Council of Canada.

Born in Trois-Rivières, Lower Canada (now Quebec), he was educated in Montreal. In 1821, he became an extra clerk for the Executive Council of Upper Canada. From 1867 to 1872, he was the clerk of the Privy Council. Being the first Clerk of the Privy Council, he was a Father of Confederation.