As the demand for high-efficiency eco-agriculture has enriched the content of building an agricultural powerhouse, in-depth exploration and continuous improvement are essential measures and operational carriers for implementing rural revitalization strategies. Based on the development experience of securing an adequate supply, resource conservation, and environment-friendly agriculture, the study extended and expanded the scientific and theoretical connotations of high-efficiency ecological agriculture, constructed the main framework of “county-region-basin” high-efficiency eco-agriculture, and analyzed the construction ideas and development goals of high-efficiency eco-agriculture in the process of rural revitalization. Highly efficient eco-agriculture involves the improvement and sublimation of ecological agriculture. Following the requirements of improvement of the quality and efficiency of modern agriculture and the construction of a strong agricultural province in Fujian Province, this study proposed practical countermeasures for new cluster construction for the integrated development of rural ecological industrialization and industrial ecology in Fujian Province. According to local conditions and demand for a harmonious coexistence of humans and nature, the study deeply explored and established a new technology system and implemented countermeasures for the new management mechanism and entrepreneurial system of carbon neutrality in the rural areas of Fujian Province. In addition, the study explored and created production and operation models of the rural industrialization + ecological “double synergy” developments of ecological village industry and regional ecological industrialization, and the agricultural economic benefits + ecological benefits “double coordination” development; and adjusted measures to local conditions to promote the transformation and upgrading of high-efficiency eco-agriculture with regional characteristics, which is an effective path to comprehensively promote rural revitalization.