With the in-depth integration of the civil engineering and computer industries, the field of intelligent construction has emerged to meet the needs of modernization in the construction industry. The major of intelligent construction is characterized by technological integration, spanning the entire life cycle of building, high automation, and energy conservation. Compared to traditional civil engineering majors, students in intelligent construction need to learn a combination of civil engineering and smart technology within limited class hours. This demanding teaching model has led students to generally face two major challenges in their structural design studies: insufficient in-depth understanding of core structural concepts and a lack of concrete perception of engineering examples. To better guide students in completing their graduation projects efficiently, an innovative teaching guidance plan is introduced, incorporating virtual simulation teaching, a virtual platform for prefabricated building design and construction, and a multi-dimensional guidance model combining industry-university collaboration and cooperative education. This approach helps students establish a systematic understanding and clarify the design process. Results show that the reform effectively enhances students’ skills in prefabricated building design and construction, significantly improving the quality and efficiency of their graduation projects. The practice provides valuable insights for future teaching in related fields.