Some of the oldest, well-preserved exhalative sedimentary rocks (ferruginous cherts and jaspilites) occur in volcanic-dominated Paleoarchean sequences in the northern Pilbara Craton, Australia. Jaspilites contain fine-grained hematite particles that have been interpreted to have formed following seawater oxidation of vent-derived Fe2+(aq) by photoautotrophs. However, recent studies suggest that most of the iron in the jaspilites was originally deposited as Fe(II)-rich silicates such as greenalite, sparking renewed debate about how iron was precipitated in the early oceans. Here we show that rounded clasts of dusty ferruginous chert in basal conglomerates of the 3.43–3.35 Ga Strelley Pool Formation, North Pole Dome, Pilbara Craton, Australia, contain abundant nanoparticles of greenalite and apatite that are texturally, mineralogically and chemically near-identical to occurrences in Neoarchean banded iron formations in the Hamersley Group, Australia. Hematite where present occurs in trace amounts and its distribution along the edges of clasts implies that at least some of the hematite formed during weathering. The greenalite-rich clasts display a pronounced positive shale-normalized Eu anomaly, small positive Y anomaly and lack a positive La anomaly, features typical of Paleoarchean exhalites. The co-occurrence of greenalite- and apatite-rich chert-pebbles with clasts of hydrothermal black chert and silicified felsic volcaniclastic sedimentary rocks points to a volcanically active provenance with vigorous hydrothermal activity, consistent with derivation from the underlying 3.43 Ga Panorama Formation. We argue that the greenalite and apatite nanoparticles precipitated during mixing between hydrothermal vent fluids and anoxic seawater and were silicified on the seafloor. The round to oval shape of the chert clasts indicates that the silica cement had recrystallized prior to erosion, consistent with the presence of polygonal shrinkage structures in the dusty chert clasts. Our findings imply that greenalite, contrary to recent suggestions, not only formed in Paleoarchean seawater, but was also stable during deposition, diagenesis, and resedimentation. The precipitation and non-dissolution of apatite nanoparticles in Paleoarchean seawater points to elevated phosphate concentrations, whereas the absence of primary hematite is consistent with models advocating a role for abiotic iron deposition during the Archean.