Abstract: Protected horticulture, with a rapid increasement of investment and scale, is becoming more and more important in the agricultural modernization process of China. But problems with protected horticulture from both macro-view and micro-view are also more and more serious. Constructing a scientifical, integrated and systemic engineering integrative mode to direct and support the development of protected horticultural industry becomes a key approach to optimize the industry’s development mode. This paper altered the mode constructing process to the process of a complex system and organization establishment. A systematic methodology was established through tools of systematics and method of combing reductionism with holism, self-organization with hetero-organization. The systematic methodology can be applied to construct integrative modes of technology, organization or industry, which is suitable for different levels of protected horticulture operating subjects such as growers, organizations and governments. Furthermore, an elementary evaluation indicator system for the engineering integrative mode was established. The study will lay methodological foundation for the construction of protected horticultural engineering integrative mode and effectively guide relative research and industry development of Chinese protected horticulture. The result will not only serve as reference for protected agriculture research, but also provide theoretics support for establishment of modern agricultural engineering system.