Although COVID-19 vaccines have been available in Jordan for more than a year, Jordan suffers from a low vaccination rate. The aim of this study was to explore attitudes towards recent issues in vaccination among university students in Jordan. We adopted a cross sectional study design using an online questionnaire distributed in a Jordanian university with a medical school chosen at random. The survey asked about COVID-19 vaccine preferences, factors affecting COVID-19 vaccine preferences, child vaccination, and booster vaccines. A total of 417 students completed the survey. Most respondents (54.7%) preferred the Pfizer vaccine, and 6.2% refused to take any vaccine. Pfizer’s efficacy against new strains is a main factor in preferring Pfizer over other vaccines (p < 0.01). Most respondents (71%) believed that vaccination is crucial to prevent COVID-19 surges from new COVID-19 strains, while 44.6% of respondents believed that children should be included in vaccination campaigns, and 70% believed that booster vaccines required more studies to prove their efficacy. Students had mixed attitudes towards many recent issues concerning COVID-19 vaccination. Studying these factors and attitudes in more depth and in different populations can pave the way towards improving vaccination rates worldwide.