Rural heritage that involves agricultural heritage could be critical to enhancing community identity through a conservational approach. The purpose of this research is to develop conservational methods for rural heritage that include agricultural heritage areas through the use of ecomuseums. To conduct the research, we first reviewed the concepts of ecomuseum and rural heritage. Secondly, we defined the concept of the Korean rural ecomuseum by taking into consideration the concept defined by Riviere, Globally Important Agricultural Heritage Systems (GIAHS), the rural heritage policy of Europe, and the agricultural heritage systems of Korea. Thirdly, we also describe methods that are applicable to Korean rural ecomuseums, which include type classification and components. Finally, we applied the ecomuseum concept to two pilot models in the Cheongsando and Gurae areas, both Korea Important Agricultural Heritage System (KIAHS) sites. We conclude that it is desirable to expand the range of targets for conservation from agricultural heritage to rural heritage areas. From this point of view, the rural ecomuseum can be a highly valuable tool that can help preserve agricultural heritage sites and neighboring areas. Furthermore, the ecomuseum can enhance community identities, and strengthen local economies.