Batang Rizal is about the journey of Pepito, a young boy who accidentally damages a statue of the young Jose Rizal. In his struggle to repair it, he comes across a magical book that takes him to the time of the young Jose "Pepe" Rizal. Together, they traverse time and meet various characters from the past and present. During their magical journey, they find out the truth about heroes and how anybody, no matter how old or young they are, can be one.