Molybdenum disulfide (MoS2) has been regarded as a promising anode material for sodium ion batteries (SIBs) due to its high theoretical capacity and graphene-like layered structure. However, the intrinsically low conductivity and large volume expansion during charge/discharge cycling have become two key challenges hindering the practical application of MoS2 electrodes. Here, few-layered MoS2 nanosheets with S-vacancies are anchored on a 3D flower-like N-doped carbon frameworks (NCF@V-MoS2) by facile hydrothermal method and chemical etching strategy. The introduction of S-vacancies onto MoS2 nanosheet surface not only adjusts the electronic structure and intrinsically improves the conductivity, but also enlarges the interlayer distance and accelerates Na+ diffusion. The density functional theory calculations reveal that the existence of S-vacancies strongly accelerates Na+ absorption ability. Benefiting the synergistic effect of the conductive NCF and V-MoS2, the as-synthesized NCF@V-MoS2 yields a high specific capacity with excellent rate performance and cycling stability. This novel design strategy holds great promise for the development and application of high-performance SIBs in the future.