Due to the fact that forest ecosystems can potentially mitigate the impact of climate change, the carbon balance of managed forests has caught the attention of a large scientific community. Some authors conclude that extending rotation lengths would actually favour the climate change mitigation effect since more carbon would be stored in the biomass on the average. However, when the occurrence of catastrophic disturbances such as windstorms is not considered, the advantage of extending the rotation length might be overestimated for some species. In this study, we addressed this issue by coupling a growth model, a windstorm damage model and a carbon assessment tool. The evolution of an even-aged European beech (Fagus sylvatica L.) stand was simulated under three different rotation lengths. Simulations including stochastic windstorm events were run and compared with deterministic simulations with no catastrophic disturbance. Our results indicate that when disturbances caused by storms were not taken into account, the carbon balance was actually overestimated in some cases and that this overestimation increased with the rotation length. In our case study, omitting windstorm damage resulted in an overestimation as large as 8% for the longer rotation length. Nevertheless, when windstorm damage was taken into account in the simulation, the longer rotation length still stored more carbon on the average than shorter rotation lengths. However, the marginal gain in carbon storage induced by the increase of the rotation length was reduced.