This dataset contains greenhouse gas flux measurements, namely: methane (CH4), carbon dioxide (CO2), and nitrous oxide (N2O) and auxiliary data, including PAR (Photosynthetically Active Radiation), soil moisture, and soil temperature from manual chamber campaigns at the Stordalen Mire (68.20°N, 19.03°E, 351 m above sea level) in sub-Arctic Sweden in September 2022, May, July, and September 2023, and June, July, and August 2024. The Stordalen Mire is located within the sporadic permafrost zone, adjacent to Lake Torneträsk. A large portion of the mire consists of a slightly elevated drained area, interspersed with wetter depressions, which are not underlain by permafrost. It is located on the 0°C isotherm, which causes the permafrost in the mire to be sporadic and highly dynamic in nature. As a result of recent years of warming in the area, permafrost has been observed to degrade in many parts of the mire. More information on Stordalen can be found here: https://www.icos-sweden.se/abisko-stordalen https://www.arcticcirc.net/stordalen Our dataset is grouped into four different microhabitats along a thawing (moisture) gradient from dry to wet: palsa lichen (dry), palsa moss (dry), bog (wet), and fen (wet). Please refer to our publications: Triches, N. Y., Engel, J., Bolek, A., Vesala, T., Marushchak, M. E., Virkkala, A.-M., Heimann, M., and Göckede, M.: Practical guidelines for reproducible N2O flux chamber measurements in nutrient-poor ecosystems, Atmos. Meas. Tech., 18, 3407–3424, 2025. DOI: https://doi.org/10.5194/amt-18-3407-2025 Triches, N. Y., Bolek, A., Rovamo, M., et al.: Light and dark conditions control the nitrous oxide uptake and emission dynamics in a subarctic, nutrient-poor permafrost peatland, Commun Earth Environ, 7, 471, 2026. DOI: https://doi.org/10.1038/s43247-026-03698-3