The long-term consequences of COVID-19 infection are becoming increasingly evident in recent studies. This repeated cross-sectional study aimed to explore the long-term health and cognitive effects of COVID-19, focusing on how virus variants, vaccination, illness severity, and time since infection impact post-COVID-19 outcomes. We examined three cohorts of university students (N=584) and used non-parametric methods to assess correlations of various health and cognitive variables with SARS-CoV-2 infection, COVID-19 severity, vaccination status, time since infection, time since vaccination, and virus variants. Our results show that some health and cognitive impairments persist, with some even progressively worsening especially fatigue in women and memory in men, up to four years post-infection, with the Wuhan variant having the most significant long-term impact and the Omicron variant the least. Interestingly, the severity of the acute illness was not correlated with the variant of SARS-CoV-2. The analysis also revealed that individuals who contracted COVID-19 after vaccination had better health and cognitive outcomes compared to those infected before vaccination. The study also discusses some limitations inherent in cross-sectional studies, particularly those arising from the stronger tendency of individuals with poorer health, compared to healthier individuals, to avoid infection and prioritize vaccination. To mitigate potential bias, the study proposes focusing on factors such as illness severity and time since infection or vaccination when analyzing persistent symptoms.