Henry Allen Cooper (September 8, 1850 – March 1, 1931) was an American lawyer and progressive Republican politician from Racine County, Wisconsin.

Their house was a station of the Underground Railroad, and in 1852 sheltered fugitive slave Joshua Cooper on his way to Canada.

During his time in the State Senate, he authored a bill to introduce the secret ballot in Wisconsin.

In 1892, Cooper was elected to the fifty-third Congress, running on the Republican Party ticket in Wisconsin's 1st congressional district.

Partly due to his opposition to American involvement in World War I, Cooper failed to gain reelection to his seat in 1918, finishing his term on March 3, 1919.