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High water tables (WT) stabilise peatland carbon (C) through regulation of biogeochemical processes. The impact of peatland WT on ecosystem function, including C exchange, alters over time, and the factors that cause some peatlands to display resilience and others to undergo degradation are poorly understood. Here we use CO 2 flux measurements, measured by eddy covariance, to compare ecosystem function between two raised bogs; one drainage-affected, with a deep and fluctuating water table and the other near-natural, with a shallow and stable water table. The drainage-affected bog was found to be a moderate sink for CO 2 (69 g C m -2  yr -1 ), which was 134 g C m -2  yr -1 less than the near-natural bog (203 g C m -2  yr -1 ). Greater ecosystem productivity has allowed the drainage-impacted bog to act as a CO 2 sink despite higher ecosystem respiration; most likely due to an increase in photosynthetic capacity caused by expansion of ericaceous shrub cover. The tolerance of the vegetation community, particularly the main peat former Empodisma robustum (Restionaceae), to low and fluctuating WT appears to have been key in allowing the site to remain a sink. Despite the current resilience of the ecosystem CO 2 sink, we found gross primary production to be limited under both high and low water tables, even in a year with typical rainfall. This is best explained by the limited physiological ability of ericaceous shrubs to tolerate a fluctuating WT. As such we hypothesise that if the WT continues to drop and become even more unstable, then without further vegetation change, a reduction in gross primary production is likely which may in turn cause the site to become a source for CO 2 ., (Copyright © 2018 Elsevier B.V. All rights reserved.)