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We measured diel fluctuations in surface water chemistry of two high marsh ponds in July 2016. The ponds are shallow and experience day-night swings in oxygen concentrations, from super-saturation to anoxia. Our goal was to characterize changes in geochemical properties and dissolved organic carbon concentrations that accompany wide swings in oxygen concentrations. These data provide information about the responsiveness of microbial communities and how the dominance of redox-sensitive metabolisms changes over short time scales (e.g., hours) to feed back on pond water chemistry.