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Though research has suggested the effectiveness of simulation-based learning, the adoption of simulation in medical education is still limited, and its effects on motivation is rarely studied. A quasi-experimental study was conducted with a group of undergraduate medical students in China to examine how simulation-based learning impacted student learning of human parasitology as well as students’ subjective task values, a key component of student motivation. The results suggested that simulation-based learning was more effective in improving students’ learning as compared to the traditional lecture-based instruction. In addition, the traditional lecture-based instruction had a negative impact on students’ subjective task values, while the negative effect was not observed in the simulation-based learning condition. The significance of the findings was discussed.