Porewater dissolved silicic acid (DSi) concentrations and stable Si isotope compositions (δ30Si) together with biogenic silica (bSiO2) contents of sediments in five sediment cores collected from the southern Mariana Trench are presented. These data suggest the occurrence of bSiO2 dissolution and concomitant authigenic clay formation in three bSiO2‐bearing cores. A reaction‐transport model constrained by the measured geochemical data was applied to quantify the rates of Si turnover. Model results predicted the greatest rates of both bSiO2 dissolution and authigenic clay formation at the trench axis core that displayed low bSiO2 contents and abundant detrital materials, suggesting that detrital materials may be a limiting factor for bSiO2 diagenesis. Model results further predicted that ∼40%–70% of DSi generated by bSiO2 dissolution is consumed by authigenic clay formation. This is the first study that demonstrates active silica diagenesis in the hadal realm and has implications for understanding benthic Si cycling in deep‐sea settings.