As a complementary and symbiotic agro-ecological cycle system, a nature-based integrated rice–fish–duck farming ecosystem was developed in the Honghe Hani Rice Terraces. The main research objective was to evaluate the ecosystem services based on case studies of the Hani integrated rice–fish–duck terraced farming system and determine its potential and its importance as an ecological asset. We developed a valuation model to assess the value of the integrated farming system based on the three aspects of provisioning, regulation and maintenance, and cultural services; we selected eight groups and 10 indictors to evaluate the ecosystem services of the integrated ecosystem in Honghe Hani Rice Terraces was 3.316 billion CNY, of which the provisioning service value was 1.76 billion CNY, the regulation and maintenance service value was 1.32 billion CNY, and the cultural services value was 230.85 million CNY. The evaluation will be useful as a theoretical reference for poverty alleviation policy makers in similar poverty-stricken areas, enabling them to better protect and promote this mode of farming and further promote the protection of the natural environment and cultural heritage alongside the sustainable development of natural resources and human well-being.