Rapid warming in polar regions is causing large changes to ecosystems, including altering environmentally available mercury (Hg). Although subarctic freshwater systems have simple vertebrate communities, Hg in amphibians remains unexplored. We measured total Hg (THg) in wetland sediments and methylmercury (MeHg) in multiple life-stages (eggs to adults) of wood frogs (Rana sylvatica) and larval boreal chorus frogs (Pseudacris maculata) from up to 25 wetlands near Churchill, Manitoba (Canada), during the summers of 2018–2019. We used egg mass counts for wood frogs from 24 wetlands (2015–2019) and per-ovum MeHg concentrations to estimate site-level MeHg flux by metamorphs from wetlands to the terrestrial environment. Total Hg in wetland sediment was unrelated to MeHg concentrations of amphibian larvae, but sediment THg increased with from coastal tundra vegetation to inland boreal forests. Methylmercury concentrations of wood frog eggs (geometric mean = 35.9; range: 6.7–77.9 ng/g dry wt) exceeded previous reports for amphibians, including from sites contaminated by industrial sources of Hg. Methylmercury concentrations of adult wood frogs (298.9 ng/g dry wt) were also higher than that for frogs included in a recent assessment of MeHg in amphibians across the contiguous United States. Within wetlands, MeHg concentrations of wood frog larvae were strongly correlated with MeHg concentrations in eggs earlier in the summer, and concentrations increased with each life stage. We estimate there would have been 1,971.8–3,286.4 ng MeHg exported from wetlands by wood frog metamorphs, which is 3.4–5.6 times more MeHg than inputted by eggs. Collectively, these data provide an initial assessment of Hg concentrations, body burdens, and dynamics in subarctic food webs that are expected to experience large changes from climate warming.