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Background Very few studies prospectively analyzed medical students’ mental health before and during the COVID-19 pandemic. This study aimed to prospectively evaluate mental health in medical students in 2018, 2019, and 2020 during the COVID-19 pandemic lockdown. Methods All students from first to fourth year were invited to participate in 2018. These students were also invited to participate in the same period in 2019 and 2020 (during the peak of the COVID-19 lockdown). The Self-Reporting Questionnaire (SRQ-20), created by the WHO to investigate 20 nonpsychotic psychiatric symptoms, was used to evaluate common mental disorders. The cut-off for relevant symptom severity for mental distress is seven (SRQ-20 ≥ 7). Results In the years 2018, 2019, and 2020, a total of 860 SRQ-20 questionnaires were completed. Overall, mean SRQ-20 scores were 8.2 ± 4.6, and SRQ-20 ≥ 7 frequency was 60.5%. When comparing the years 2018, 2019, and 2020, no differences were found for either SRQ-20 scores (8.4 ± 4.7, 8.2 ± 4.6, and 7.8 ± 4.4, respectively; p = 0.351) or SRQ-20 ≥ 7 frequency (62.2%, 60.9%, and 59.2%, respectively; p = 0.762). Conclusion In contrast to our initial hypothesis, stable results on mental health measures were found even during the 2020 COVID-19 lockdown. Maintenance of daily routines through distance learning and the continuation of adapted clerkship activities with strict safety measures could have contributed to these results. However, this study points to high overall levels of common mental disorders, especially among women. Further studies should be conducted to understand all the factors responsible for such stability, such as social and economic support, resilience, or even previous high levels of common mental disorders.

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