Storm surges and wind waves are ones of the most important hydrological characteristics, which determine dynamics of the Sea of Azov. Extreme storm surges in Taganrog Bay and flooding in the Don Delta can be formed under the effect of strong western winds. In this work the sea level oscillations and wind waves in the Taganrog Bay were simulated by means of the coupled SWAN+ADCIRC numerical model, taking into account the flooding and drying mechanisms. The calculations were carried out on an unstructured mesh with high resolution. The wind and atmospheric pressure fields for the extreme storm from 20 to 28 of September, 2014 obtained from WRF regional atmospheric model were used as forcing. The analysis of simulation results showed the following. The western and northern parts of the Don Delta were the most flood-prone during the storm. The size of the flooded area of the Don Delta exceeded 50%. Interaction of storm surge and wind wave accelerated the flooding process, increased the size of the flooded area and led to the intensification of wind waves in the upper of Taganrog Bay due to the general rise of the sea level.