The positive impact of the development of new agricultural business entities and their institutional systems on the optimization of rural governance structures can be examined from various perspectives, including the state, market, rural society, urban-rural relations, and grassroots governance structure in rural communities. The development of these new agricultural business entities has not only redefined but also restructured the power distribution and governance patterns in rural developing countries, markets, and villages. The rural social order has evolved into a ternary mutual structure governance pattern, often referred to as the “state market rural” model. This transformation has prompted adjustments in the national economic and social policy structure and management systems at both macro and micro levels. It has led to the reshaping of power dynamics, benefit distribution, and governance structures in both urban and rural areas, resulting in significant changes to the economic and social fabric of rural regions. Furthermore, the grassroots governance structure in rural society, characterized by “township governance and village governance,” is undergoing continuous development and improvement. This transition is marked by a shift towards a collaborative governance structure that encourages diverse participation. Building upon the aforementioned optimizations, the rural governance structure now exhibits new characteristics. These include a more extensive and diverse range of rural governance mechanisms, increased openness in governance processes, and a heightened synergy among various governance mechanisms. This dynamic evolution reflects a richer, more diverse, and more open approach to rural governance, fostering a stronger collaborative effort in the pursuit of effective governance.