In view of the current issues in the Digital Circuit and Logic Design course, such as students’ weak practical abilities and lack of hardware thinking, this study proposes a practice teaching reform scheme guided by hardware thinking. By constructing a three-dimensional training framework for visualization ability of circuit behaviors, system design ability, and circuit implementation ability, combined with the hierarchical ability training system of FPGA bare board (including assembly, testing, and development), the students’ fundamental understanding and engineering practice capabilities of hardware systems are strengthened. The teaching practice shows that the reform has significantly improved students’ abilities to solve complex engineering problems and provides a reusable path for the training of digital system talents under the new engineering context.