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Abstract Boreal‐Arctic regions are key stores of organic carbon (C) and play a major role in the greenhouse gas balance of high‐latitude ecosystems. The carbon‐climate (C‐climate) feedback potential of northern high‐latitude ecosystems remains poorly understood due to uncertainty in temperature and precipitation controls on carbon dioxide (CO₂) uptake and the decomposition of soil C into CO₂and methane (CH₄) fluxes. While CH₄fluxes account for a smaller component of the C balance, the climatic impact of CH₄outweighs CO₂(28–34 times larger global warming potential on a 100‐year scale), highlighting the need to jointly resolve the climatic sensitivities of both CO₂and CH₄. Here, we jointly constrain a terrestrial biosphere model with in situ CO₂and CH₄flux observations at seven eddy covariance sites using a data‐model integration approach to resolve the integrated environmental controls on land‐atmosphere CO₂and CH₄exchanges in Alaska. Based on the combined CO₂and CH₄flux responses to climate variables, we find that 1970‐present climate trends will induce positive C‐climate feedback at all tundra sites, and negative C‐climate feedback at the boreal and shrub fen sites. The positive C‐climate feedback at the tundra sites is predominantly driven by increased CH₄emissions while the negative C‐climate feedback at the boreal site is predominantly driven by increased CO₂uptake (80% from decreased heterotrophic respiration, and 20% from increased photosynthesis). Our study demonstrates the need for joint observational constraints on CO₂and CH₄biogeochemical processes—and their associated climatic sensitivities—for resolving the sign and magnitude of high‐latitude ecosystem C‐climate feedback in the coming decades.