Flood embankments alongside rivers serve as an essential early line of defense in places that are vulnerable to flooding, thereby preventing nearby low-lying areas from flooding. In several places, these embankments require upgradation in terms of raising the crest height to increase storage capacity. However, the combination of flood and seismic occurrences offers a complicated challenge to the structural stability of these embankments. The dynamic stability of upgraded flood embankments needs a thorough study. In the present study, dynamic analysis is performed using finite element modeling to determine the stability of upgraded homogenous flood and that of a comparable zoned embankment. Four types of models are analyzed: (a) embankment with raised height and widened on both sides of existing embankment, (b) embankment with raised height and widened only in the river side of existing embankment, (c) embankment only with raised height without any kind of widening, and (d) a zoned embankment of same height. Dynamic stability is assessed for two types of water level conditions, i.e., flooding and drawdown conditions. Newmark’s method has been employed to determine the seismic deformation of flood embankment when it is subjected to seismic loading. The results demonstrate that seismic deformations during flooding conditions exhibit minor effects on the downstream face for all considered embankments, irrespective of the presence of a core. However, after a sudden drawdown of water levels, a rapid change in seismic deformation is observed on the upstream face. Furthermore, the seismic deformation of embankments increases with the steepness of the side slopes. The incorporation of an impervious core in flood embankments serves a dual purpose by not only confining seepage within the embankment but also improving its dynamic stability. This understanding emphasizes the multifaceted role of impervious cores in enhancing both seepage control and dynamic stability while also giving insight on the complex interplay of seismic forces, drawdown situations, and embankment slopes.