Promoted to captain in January 1862, Harris resigned from Wilcox's staff in July 1862 and was assigned as a lieutenant and acting ordnance officer in Gen. Daniel Harvey Hill’s division.

Promoted to the temporary rank of captain in the spring of 1863, Harris was yet reassigned and named Chief of Ordnance of Gen. Robert E. Rodes’ division.

Shortly thereafter, Harris was employed as a civil engineer in the construction of the Union Pacific Railroad until 1868; that year, he moved to Lawrence, Kansas.

He was appointed agent for the railroad companies in the sale of the Delaware Reservation and other lands, and in 1884 moved to Linwood, Leavenworth County and engaged in agricultural pursuits and stock raising.

Harris died in Chicago at the home of his sister,[1] where he had gone to work with the National Livestock Association, in 1909; interment was in Oak Hill Cemetery, Lawrence, Kansas.