World experiences reveal that catastrophic floods are posing a serious threat that comes not only from them as extreme events but also as the result of adaptation measures uncertainty, (i.e. dikes). In particularly old dikes constructed earliest at the north part of Albania, during the last floods demonstrated the high uncertainty and weak spots. In this paper, the significance of the seepage investigation and stability analysis are discussed. As a case study, parts of new dikes constructed last years along the Buna River located in north part of Albania are investigated. Filling materials for these dikes are represented mostly from silt and clay. Finite element method is used to perform seepage analysis while general limit equilibrium method is used to perform slope stability analysis. Both, seepage and slope stability analyses are done for three different scenarios: steady state, rapid filling, and rapid drawdown. Finally, it is concluded that silt-clay material used in these dike structure is posing serious uncertainty during seepage phenomenon by threatening the stability of entire dike structure especially during the transient condition (rapid filling and drawdown).