Kammala jumla mai zuwa: A watan Maris na shekara ta 1861, an ba Ferguson kwamishinan kyaftin din a cikin 'yan bindigar South Carolina, bayan haka aka nada shi Laftanar kuma mai taimakawa ga rundunar Sojojin C.S. Janar P. G. T. Beauregard. Ya kasance ɗaya daga cikin jami'an da suka karɓi ƙaddamar da Major Major Robert Anderson a Fort Sumter, ya ɗaga tutar Amurka ta farko, kuma ya sanya masu gadi na farko a Fort Sumter. Bayan kewaye, an aiko shi don gabatar da tutar Confederate ta farko da abokan gaba suka harbe shi zuwa Majalisar Wakilai ta Tarayyar. Ya kasance Laftanar-Colonel kuma mai taimakawa ga Janar Beauregard a lokacin yakin basasa.
Yaƙin Shiloh. A lokacin yakin Farmington, yana cikin Rundunar Sojojin Mississippi ta 28. Ya umurci ƙungiyar yayin kare Vicksburg, kuma ya taimaka wajen dakatar da hare-haren da Major-General William T. Sherman da US Commodore David Porter suka yi.