Infectious diseases pose major public health challenges to society, highlighting the importance of designing effective policies to reduce economic loss and mortality. In this paper, we propose a framework for sequential decision-making under uncertainty to design fairness-aware disease mitigation policies that incorporate various measures of unfairness. Specifically, our approach learns equitable vaccination and lockdown strategies based on a stochastic multi-group SIR model. To address the challenges of solving the resulting sequential decision-making problem, we adopt the path integral control algorithm as an efficient solution scheme. Through a case study, we demonstrate that our approach effectively improves fairness compared to conventional methods and provides valuable insights for policymakers.