Sulfate reduction and its associated contaminant immobilization in marsh soils supporting a phosphogypsum stack was examined by pore-water and solid analysis, selective extractions, microscopy and sulfur K-edge X-ray absorption near-edge structure (XANES) spectroscopy. The negative impact of this stack on estuarine environments is a concerning problem. In the weathering profile, total concentrations of most pollutants increase with depth; instead, dissolved contents in pore-waters increase to middle of the saturated zone but then decrease drastically down to reach the marsh due to sulfide precipitation. Excess of acid-volatile sulfide plus pyritic sulfur over metals bound to the oxidizable fraction indicates that sulfide precipitation is the main mechanism responsible for metal removal in the marsh. Thus, abundant pyrite occurred as framboidal grains, in addition to other minor sulfides of As, Zn and Cu as isolated particles. Moreover, high contents of elemental sulfur were found, which suggest partial sulfide oxidation, but marsh may have capacity to buffer potential release of contaminants. The importance of sulfur species was quantitatively confirmed by XANES, which also supports the accuracy of selective extraction schemes. Accordingly, managing pore-water quality through organic carbon-rich amendments over phosphogypsum stacks could lead to a decrease in contaminant loading of leakages resulting from weathering.