He fought with General
John C. Breckinridge, the former
Vice President of the United States, in the 1862 campaign to regain control of
Baton Rouge, Louisiana. The combined Breckinridge-Ruggles forces were unable to regain the capital city. From August 15 to August 29, 1862 Ruggles was in command of the
Port Hudson position on the Mississippi in Louisiana and supervised the planning and initial construction of fortifications in that region. On the 29th he was ordered by Breckinridge to move with some of his troops to the state of Mississippi to aid
Earl Van Dorn in his attempt to recapture Corinth, Mississippi in the ensuing
Second Battle of Corinth. "Most of the predatory warfare [after the fall of Vicksburg, in 1863], was waged by Federal troops stationed on the Memphis-Charleston Railroad [in southern Tennessee], and near it in [northern] Mississippi. On the eastern part of that frontier, Brig. Gen. Ruggles commanded
Ferguson's brigade of Confederate cavalry, and ten or twelve field pieces...This disposition had been made by Lt. Gen. Pemberton." For the rest of the war he performed mostly administrative duties and was named as the head of the prison system in 1865. He oversaw the final exchange of Union prisoners of war at the end of the conflict. ==Later life==