The integration of medical and engineering is an important development direction in the construction of new engineering disciplines, and the construction of the practical course system for medical and engineering integration is an important part of cultivating high-level medical and engineering interdisciplinary talents. This article is based on the needs of cultivating outstanding innovative talents in the new era, and researchs a practical course system driven by project based integration of medical and industrial engineering. The practical course system of medical engineering integration is aimed at solving clinical medical engineering problems, driven by a continuous medical engineering integration innovation project, guided by innovative thinking in medical engineering, with full process practice as the main line, engineering innovation ability cultivation as the core, and diversified two-way evaluation and assessment as the closed-loop. Through the innovative practical teaching mode of interdisciplinary integration of medical engineering, it aims to achieve the integrated cultivation of students’ knowledge, ability, practice, innovation, labor, and other aspects to comprehensively enhance students' self-learning ability, practical ability, theoretical foundation, teamwork, innovation ability, and communication and expression.