Surface modification of SnO2:F particles which obtained from a large-scale electron cyclotron resonance-metal organic chemical vapor deposition system was carried out by two consecutive processes: electroless plating processing and annealing. First, Ni film on the SnO2:F and Ni nanoclusters were observed after Ni electroless plating; the film on the SnO2:F was then converted to Ni3Sn2 after annealing at 800 °C under an argon atmosphere. A Ni3Sn2 bimetallic structure formed instead of NiO during the annealing process because of the presence of carbon impurities in SnO2:F. The surface-modified Ni3Sn2-covered SnO2:F with Ni nanoclusters (SnO2:F@Ni3Sn2/Ni-nc) was employed as an anode material for lithium-ion batteries. The inactive Ni in Ni3Sn2 acts as a buffer matrix against the Sn active material during the charge-discharge reactions, enhancing the electrochemical performance. The Ni nanoclusters in SnO2:F@Ni3Sn2/Ni-nc perform dual functions: they not only improve the conductivity as the contacting media, but also increase the initial columbic efficiency by the decomposition of Li2O—an electrochemically irreversible material. An outstanding reversible capacity of 600.69 mA h g−1 and a coulombic efficiency of 99.23% for SnO2:F@Ni3Sn2/Ni-nc were observed at the 350th cycle under 200 mA g−1 in the our experimental range.