The ROK government has developed the Nuclear Export and Control System (NEPS) to implement export control activities. Although it was launched in 2008 as a system that can work with classification, licensing, nuclear material approval, government-to-government assurance, complying with nuclear cooperation agreement (NCA) handled through official documents. In order to enhance systematic management for items subject to NCA, KINAC developed a new module for the procedure (hereinafter referred to as “NCA module”) and opened it in 2022. This paper presents the module’s development background, key features, and current operation status. The NCA module prioritizes functional expansion and flexibility, distinct from other tasks for the following reasons. First, the export control duties of classification, export license, and approval for NM are based on domestic law, leading to predetermined target items, application forms, and processes that change only through statutory amendments. In contrast, the implementation of NCA has numerous procedural variables, varying across countries in scope, content, and procedures. Therefore, if the function is over-standardized, there would be many exceptions that the system cannot resolve in practice. Second, the existing NEPS process entails a one-time decision or approval for each application, while the implementation of the agreement encompasses four related procedures for each item: prior notification, written confirmation, shipment notification, and receipt confirmation. Even some steps may be omitted depending on the case. The other difference is the working process. The implementation of NCA must be initiated from the government, so the existing methods, beginning with the licensee filling a form, cannot be adopted as it is. The NCA module has adopted a new reference numbering system to resolve these challenges. It enables the creation of multiple procedures under one reference number on an item to expand the tasks and make it possible to omit some steps or to reflect case-by-case concerns in each stage. It also provides a consolidated view of multiple notifications related to a single item, ensuring to deal with even long-running tasks without missing any obligations until the final procedure. Moreover, some of the data in the NCA module is extensible by allowing users to manage the list themselves. For example, the system can respond to new agreements by allowing users to add and modify codes that distinguish counterparty countries. As a result, the current NCA module accommodates a variety of implementation scenarios, including split shipments, the procedural omissions, and the modification of additional counterparties, offering enhanced flexibility and adaptability.