Climate change has become one of the most important environmental concerns of our planet. This research concerns with the hidden influence of water including ground response due to wetting and drying effect by the impact of periodical changing condition of climate on the Madhupur Clay soils of the Jahangirnagar University Campus, Savar, Dhaka, Bangladesh. Three dimensional deformation characteristics have also been evaluated to interpret the ground response. It is established that seasonal variations of water level and moisture content has a direct influence on the change of water content and deformation characteristics within the soil mass of the study a rea. Three dimensional deformation characteristics (3-D swelling strain) measured by ISRM (1979) apparatus show that the swelling strain along normal to the bedding plane is higher than the swelling parallel to the bedding plane with medium swell potential. In monsoon period increasing amount of rainfall will cause the rise of water level which may result in swelling of the soil and lower amount of rainfall will result in the decrease in water content of the soil mass that may cause the soil to shrink during the dry season. The continuous wetting and drying effect due to seasonal variation of water level may result in the small to large scale structural damage in the existing buildings of the Jahangirnagar University Campus.