Integration of cranio-maxillofacial surgery training for doctor degree candidates and that for specialist physicians is an important measure of postgraduate education reform in China. From September 2017 to December 2021, eleven cranio-maxillofacial surgery doctoral degree candidates were selected as the research subjects for the training programs of integrating self-directed learning with department learning, theoretical learning with clinical operation, and scientific research training with clinical training. The training results showed that 76 SCI articles and 21 CSSCI articles had been published, and 10 utility model patents had been approved. All the students passed the clinical comprehensive skills assessment of standardized training for resident physicians in Beijing. Their comprehensive academic abilities such as scientific research level and clinical level have been significantly improved, and their satisfaction with clinical work has been improved. These training programs are recognized by professional doctoral degree candidates as an effective method to improve the level of scientific research and clinical technique.