The eddy covariance (EC) technique is currently the most widely used method for measuring carbon exchange between terrestrial ecosystems and the atmosphere at the ecosystem scale. Using this technique, a regional carbon flux network comprising a total of 34 sites has been established in the Heihe River basin (HRB) in northwest China. This network has been measuring the net ecosystem exchange (NEE) of CO2 for a variety of vegetation types. In this study, we have compiled and post-processed half-hourly flux data from these 34 EC flux sites in the HRB to create a continuous, homogenized time series dataset. We employ standardized processing procedures to fill data gaps in meteorological and NEE measurements at half-hourly intervals. NEE measurements are also partitioned into gross primary production (GPP) and ecosystem respiration (Reco). Furthermore, half-hourly meteorological and NEE data are aggregated into daily, weekly, monthly, and yearly timescales. As a result, we produced a continuous carbon flux and auxiliary meteorological dataset, which includes 18 sites with continuous multi-year observations during 2008-2022 and 16 sites observed only during the 2012 growing season, amounting to a total of 1513 site months. Evapotranspiration and energy flux measurements are also included. Using the post-processed dataset, we explored the temporal and spatial characteristics of carbon exchange in the HRB. In the diurnal variation curve, GPP, net carbon uptake, and Reco peak later for ecosystems in the artificial oasis (cropland and wetlands) compared to those outside the artificial oasis (grassland, forest, woodland, and Gobi/desert). Seasonal net carbon uptake, GPP, and Reco peak in early July for grassland, forest, woodland, and cropland but remain close to zero throughout the year for Gobi/desert. In the last decade, net carbon uptake of wetlands has significantly increased, while NEE for other ecosystems has not exhibited significant trends. Annual net carbon uptake, GPP, and Reco are significantly higher for sites inside the artificial/natural oasis compared to those outside the oasis. This post-processed carbon flux dataset has numerous applications, including exploring the carbon exchange characteristics of alpine and arid ecosystems, analyzing ecosystem responses to climate extremes, conducting cross-site synthesis from regional to global scales, supporting regional and global upscaling studies, interpreting and calibrating remote sensing products, and evaluating and calibrating carbon cycle models. The dataset can be accessed at 10.11888/Terre.tpdc.301321 (Wang et al., 2024).