Vanadium–silicon heteronuclear oxide cluster cations were prepared by laser ablation of a V/Si mixed sample in an O₂ background. Reactions of the heteronuclear oxide cations with methane in a fast‐flow reactor were studied with a time‐of‐flight (TOF) mass spectrometer to detect the cluster distribution before and after the reactions. Hydrogen abstraction reactions were identified over stoichiometric cluster cations [(V₂O₅)_n(SiO₂)_m]⁺ (n=1, m=1–4; n=2, m=1), and the estimated first‐order rate constants for the reactions were close to that of the homonuclear oxide cluster V₄O₁₀⁺ with methane. Density functional calculations were performed to study the structural, bonding, electronic, and reactivity properties of these stoichiometric oxide clusters. Terminal‐oxygen‐centered radicals (O_t^.) were found in all of the stable isomers. These O_t^. radicals are active sites of the clusters in reaction with CH₄. The O_t^. radicals in [V₂O₅(SiO₂)_1–4]⁺ clusters are bonded with Si rather than V atoms. All the hydrogen abstraction reactions are favorable both thermodynamically and kinetically. This work reveals the unique properties of metal/nonmetal heteronuclear oxide clusters, and may provide new insights into CH₄ activation on silica‐supported vanadium oxide catalysts.