Abstract: Understanding students’ misconceptions is important for effective teaching and assessment. However, discovering such misconceptions manually can be time-consuming and laborious. Automated misconception discovery can address these challenges by highlighting patterns in student data, which domain experts can then inspect to identify misconceptions. In this work, we present a novel method for the semi-automated discovery of problem-specific misconceptions from students’ program code in computing courses, using a state-of-the-art code classification model. We trained the model on a block-based programming dataset and used the learned embedding to cluster incorrect student submissions. We found these clusters correspond to specific misconceptions about the problem and would not have been easily discovered with existing approaches. We also discuss potential applications of our approach and how these misconceptions inform domain-specific insights into students’ learning processes.