Omura was responsible for military reform and at a military meeting in July 1869, he clashed with Okubo and others over the treatment of the defeated armies and the establishment of a centralized military.
大村は軍制改革の中心を担い、1869年6月には政府の兵制会議で大久保らと旧征討軍の処理と中央軍隊の建設方法について論争を展開している。