The Hudson Bay Lowlands (HBL) is a vast continuous peatland in Northern Canada. The landscape is a mosaic of mostly bogs and fens, with more limited swamp, marsh, forest and open water. Owing to rapid rates of isostatic uplift, younger peats are found closer to the coasts of Hudson and James Bays, with fen-type peatlands somewhat more prevalent on these younger surfaces. More than 30 Pg of carbon have accumulated in the HBL over the Holocene. The rates of Holocene carbon accumulation vary considerably both spatially and temporally, with some sites showing more rapid rates of carbon accumulation in the first 2-3 millennia following peatland initiation. We evaluate here the hypothesis that vegetation changes over the course of the Holocene, including fen-to-bog transitions, partially explain the variability in carbon accumulation. We find that in some cases, more rapid rates of C accumulation in the middle Holocene (5000-8000 yrs before present) are associated with early successional minerotrophic fens with higher carbon densities. Fen-to-bog transitions are recorded in many peat cores collected from present day bogs; however, these transitions are time transgressive, and can depend on the time since initiation, suggesting that climate changes may play a secondary role, relative to hydrological changes and local ecological processes. Fens are highly prevalent in the HBL landscape (covering about 38% of land cover). Cores taken from present day fens and analyzed for carbon accumulation and vegetation change indicate that many fen sites have remained fens since peat initiation. Variability in rates of Holocene carbon accumulation within fen records which have not been subject to any major vegetation change may more closely reflect climate drivers.