Climatic change has affected the entire biodiversity on the biosphere, and it is expected to have even more disastrous effects in the near future. Out of all the abiotic stresses experienced by plants, water scarcity and abundance has substantially decreased the yield of crops all over the world. Flood imposes acute stress on plants by depriving them from certain basic needs such as light, carbon dioxide, oxygen and nutrients, which ultimately affects the microbiome of the soil leading to hypoxia and anoxia. Flooding stress also leads to the production of high concentration of reactive oxygen species (ROS). These ROS are necessary for cellular signaling at low concentrations, however, at higher concentrations, it leads to oxidation of membrane lipids, pigments, nucleic acid as well as proteins. At morphological and anatomical level, the main adaptation by a plant for survival is the formation of adventitious roots and aerenchyma. Similarly, at molecular level, different genes or proteins involved in tolerance and their up and down regulation by phytohormones is also involved. The in-depth information about the mechanism(s) of adaptation in unanticipated flooding will be of immense value for developing flood tolerant crop varieties and expansion of metabolic engineering to generate highly regulated models of metabolism under stress conditions. Researchers are applying proteomics and metabolomics techniques to examine the changes induced by flood stress at morphological, anatomical, hormonal and cellular metabolism level. Proteomics and metabolomics provide deeper insights and control on the biochemical pathways, and significantly contribute in designing breeding programmes for quality production, and for better understanding of the physiological and biochemical pathways in flood stressed plants. However, these studies are still at nascent stage and the potential research directions for future implications of plant acclimation to flood stress and development of flood resistant crops for future needs attention of the researchers.