Forest management can result in net losses of carbon stock. To quantify the impact of the management it is important to assess losses or gains of carbon, as well as the sustainability of the management system. This study quantified the impact management under a Small-Scale Sustainable Forest Management Plan, which is a recently created category of authorized management for small managers in the state of Amazonas, Brazil. Impact was quantified on the number of individuals, the biomass of natural regeneration, and the damage to the remaining trees 2 months after logging. The impact of these changes on carbon stock was estimated. The study was carried out in the Uatumã Sustainable Development Reserve, Amazonas, Brazil, where two areas of small-scale forest management and one control were evaluated. Average total carbon stock previous to logging was estimated at 161.25 ± 9.66 MgC ha−1. Two months after logging, reductions were found of 3% in one managed area (MA1) and 8.3% in the other (MA3), including the carbon stock from the harvested timber. For each harvested tree, the logging caused damage to 12 trees in MA1 and four trees in MA3. The reductions in carbon stock and number of trees damaged per harvested tree were less than the reductions found for higher impact forest management and other experiences in community forest management. No significant alteration was found in the carbon stock of natural regeneration. However, there was an increase in the number of individuals, both in the logged areas and in their respective control areas.