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The global COVID-19 pandemic that is ongoing because of the Coronavirus II (SARS-CoV-2) has had until now a great impact on physical education and sports, especially due to the closure of training facilities and people’s lack of motivation. In Romania, physical activity (PA) and physical education (PE) have also been highly affected, especially among university students. To our knowledge, this is the first study conducted in Romania regarding the influence of the lockdown on the physical health and well-being of university students. This study aims to determine if and how the pandemic affected the university students’ mental and physical health in Romania, but also to highlight new strategies and approaches suggested by them through a questionnaire to enhance and motivate their participation in physical activities. Based on a cross-sectional design, a survey designed in two languages—Romanian and English—was completed by the students from the Technical University of Cluj-Napoca and foreign students that were on a mobility study visit through the Erasmus+ program in Romania. The questionnaire was filled out by 836 university students (age = 18–24 years; males: 57.73%). The findings showed that quarantine in Romania led to a significant increase in sedentarism among students and a reduction in energy for physical activity, which also affected their psychological well-being. The absence of social interactions and onsite classes led to a sedentary lifestyle among students and increased their fear and stress levels. The cancellation of all sports events and PA also led to fewer students remaining physically active. Time off training and leisure time activities caused by the ongoing restrictions might be used for new purposes, such as goal setting, overcoming injury, improving mobility, psychological development, and emphasizing strength sports for health. During the COVID-19 lockdown, sedentarism increased dramatically, especially among young people.