This study designed an integrated certification system of ISO 50001 (energy management system) and ISO 14001 (environmental management system) with the goal of reducing corporate carbon emissions, and analyzed cases of applying it to actual management. In order to overcome the limitations of individual certification, an integrated operating system of the two standards was established, and a method was sought to maximize corporate energy efficiency and carbon emission management performance. After introducing the integrated system, the company under study reduced energy consumption by up to 30%, and carbon emissions were also significantly reduced. These results were achieved through internal process improvement and supply chain collaboration. This study suggests that the ISO integrated certification system can contribute to cost reduction and sustainable management, and proposes an implementation model that can be utilized in various industries in the future.