The Confederacy had no General-in-Chief until January 1865 - too late to make any difference - and the job went to the only possible choice, Robert E. Lee.
Before that, the Confederate President, Jefferson Davis, had tried to double in this role, but was badly out of his depth.
General Wade Hampton was the highest confederate officer by the end of the war. General Robert E. Lee was the most notable commander of the confederates.
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John C. Pemberton.
General Robert E. Lee the president was Jefferson Davis
General Robert Patterson
General Albert Sidney Johnston of the Confederates. He was killed in this battle.
Maj. Robert Anderson was the commander of the Union forces stationed at Fort Sumter when the Confederates began their bombardment on April 12, 1861.
Brigadier General Loyd Tilghman was in command of the garrison at Fort Henry for the Confederates.
The Union commander of Fort Sumter was Major Anderson. After a huge Rebel artillery bombardment, he surrendered the fort on April 13, 1861.
The battles of Shiloh, where he commanded an Army Corp, Stone's River, Chickamauga and Chattanooga, where he was the Confederates' Field Commander .
Joseph E. Johnston. This was the battle where he was badly wounded and had to be replaced. The incoming commander was Robert E. Lee.
Their president, Jefferson Davis, was in command until 1862 when he gave full command to Robert E Lee.