Abstract Hierarchical microarchitecture engineering is a state‐of‐the‐art approach to designing aerogel electromagnetic (EM) wave absorbers, offering huge potential in improving EM energy dissipation. However, the intrinsic feedback mechanism regarding the specific influence of each microarchitecture parameter on EM properties is not comprehensively revealed, making it challenging to fully utilize the potential of aerogels to achieve superior EM wave absorption performance. Herein, a range of MXene/rGO‐based aerogels with multilevel hierarchical configurations are fabricated by a magnetic field‐guided strategy. Leveraging growth thermodynamics effects under a magnetic field and bridging effect between adjacent rGO units, three hierarchical microarchitecture models (lamellae ordering, interlayer spacing, and layer thickness) are constructed in aerogels. Remarkably, three models progressively improve reflection loss ( RL ), effective absorption bandwidth (EAB), and matching thickness by enhancing dielectric loss, decoupling attenuation‐impedance matching, and adjusting power loss density, respectively. Consequently, the MXene/rGO‐based aerogels exhibit stepwise enhancement in EM wave performance, achieving a superior RL of −64.6 dB and a broad EAB of 7.0 GHz at 1.8 mm thickness, surpassing alternative aerogels with other configurations. This work elucidates the effect of multilevel hierarchical microarchitecture on the synergistic multi‐effect dissipation mechanism of EM waves in aerogels, providing insights for designing advanced EM absorbers through diverse strategies.