There are several databases of archives, manuscripts, and public records for you to search to located materials related to Civil War Medicine. A few suggestions are below
Locate finding aids from History of Medicine collections using this database developed by the History of Medicine Division of the National Library of Medicine
The Virginia General Assembly enacted legislation, effective in 1867 and ending in 1894, to provide artificial limbs and other disability benefits to Virginia veterans of the Civil War. This site includes a searchable database of the applications to the Board of Commissioners on Artificial Limbs from injured soldiers
Description of Confederate Medical Department records at the National Archives and Records Administration. They did not all burn in the Richmond evacuation fire!