Children are disproportionately affected by disasters, in both the long and short term, particularly in developing countries. Children in rural areas face the most adversity since they are inadequately prepared, lacking in resources, and oblivious to their potential. Many children continue to turn to their parents or guardians for help in emergencies, however, the behavior, awareness, and preparedness of a child is equally important during an emergency. This paper takes a closer look at the physical, psychological, and educational vulnerabilities, as well as factors that influence the involvement of children in flood disaster-related activities (between 2010 and 2014) in selected disaster-hit rural communities of Pakistan. This study was based on interviews with a total of 100 school children from four selected regions and analysis was performed using univariate, bivariate, and multivariate methods. The study results show that school children in Nowshera are more susceptible to disasters than the other districts, particularly due to their psychological, physical, and educational well-being. Nowshera has the highest percentage of children who are vulnerable to all three types of vulnerability. Damage to homes and emotional distress are significant predictors of psychological vulnerability, while proximity to disaster-prone areas, poor diet, and parental loss are important contributors to physical vulnerability. Children displacement, delayed enrolment, multiple relocations, and family instability are the main factors determining educational vulnerability. Our findings suggest that in addition to having improved building infrastructure, schools must engage in disaster management efforts to educate school children about the risks of disasters.