Mothers and adolescents often perceive parenting differently, but it is unclear how different profiles of mother-adolescent perceived parenting and developmental transitions of such profiles would influence adolescent academic performance longitudinally. The current study adopted a three-wave dataset of 604 Mexican-origin adolescents (54% female; Mwave1.age = 12.92 years) and 595 mothers. Adolescents who agreed on high levels of positive parenting with their mothers in early adolescence (i.e., the Both High group) and stayed in the Both High group demonstrated the best academic performance in late adolescence. However, adolescents who changed from the Both High group in early adolescence and ended with discrepancies in perceived parenting or an agreement on low positive parenting with mothers in late adolescence had the worst academic performance. The findings suggest the plasticity of mother-adolescent relationships during adolescence, which can be an intervention target to improve Mexican-origin adolescent academic performance.