Abstract Efficient oxidation of biomass‐derived 5‐hydroxymethylfurfural (HMF) to 2,5‐furandicarboxylic acid (FDCA) under low temperature and atmospheric pressure using non‐noble metal catalysts is highly desirable yet challenging. This study employs a temperature‐controlled hydrothermal redox strategy to synthesize a series of MnO 2 nanorods (MnO 2 ‐R) and investigates their catalytic performance in HMF oxidation under ambient oxygen pressure. Results demonstrate that increasing the hydrothermal temperature not only sequentially forms β, α/β, and α phases of MnO 2 , but also continuously enriches oxygen vacancy and Lewis acid. The higher‐defect α‐MnO 2 ‐R, exhibiting a lower Mn─O coordination number, displays a 96.7% FDCA yield and an initial productivity up to 365.5 µmol FDCA g cat −1 h −1 , which are 1.5 times and 2.7 times higher than that of β‐MnO 2 ‐R, respectively. DFT calculations and spectroscopic experiments reveal that high‐temperature drives phase transition also intensifies redox reactions, leading to lower Mn coordination numbers, which result in stronger adsorption energy toward C─O bond, faster superoxide radical generation, and C─O bond oxidation. α‐MnO 2 ‐R exhibits good recyclability and excellent substrate universality toward various aromatic aldehydes/alcohols. This work provides a new perspective on designing efficient oxide catalysts, focusing on coordination/defect reconstruction of metal cations, thus deepening understanding of how to modulate these centers to enhance the catalytic oxidation efficiency.