A study was conducted on the cognitive processes involved in the steps of problem-based learning and the way this pedagogical approach is applied in the health sciences. The objective was to understand more deeply the cognitive process related to student comprehension and its connection with the work done when studying a medical discipline through problem-based learning (PBL). A case study was undertaken with a total of 30 students and an interdisciplinary team composed of a physician and two professionals in the field of education. After a video analysis process of face-to-face teamwork on PBL, it was decided to design and use an advanced organizer to systematize and ease the comprehension process while working with problem scenarios. From its initial application, the students were satisfied with its usefulness, and they provided feedback to improve its format and extend its applicability to other disciplines. It was concluded that not only is it possible to integrate hybrid models in problem-based learning, but also to include variants and auxiliary tools that arise from the cognitive demands and the information management needs of the students, thus favoring the study and the preservation of knowledge.