Colloids formed during soil flooding can potentially facilitate the mobilization of metal contaminants. Here, laboratory batch incubations with a contaminated soil were performed to monitor temporal changes in the porewater dynamics of metals, the morphology and composition of colloids, and the speciation of colloids-associated metals during 30 days of flooding. The concentrations of colloidal and dissolved metals increased initially and peaked at a certain time, but then decreased with the on-going sulfate reduction. The combined analysis of spectrometric, spectroscopic, and size-fractionation results revealed that the dynamics of Cu were dominated by microbe-associated colloids and were mediated largely by Cu(0) biomineralization and subsequent sulfidation, while the microbe-associated and freely dispersed colloids were equally relevant for governing the dynamics of Cd and Pb. Mobilization of Zn, on the other hand, was dominated by its dissolved form, probably due to the low thermodynamic stability of Zn-sulfide. Additionally, adsorption via organic functional groups was another mechanism for metal incorporation into colloids. We also provided direct spectroscopic evidence for the formation and persistence of dispersed heterocolloids consisting of CuxS and CdS during flooding. Our findings suggest that colloids-induced metal mobilization should be considered in assessing bioavailability and risks of metals in contaminated soils upon flooding.