The quality of soils under different land uses is getting deteriorated throughout the world due to various anthropogenic activities. This deterioration is highly complex in riverine floodplain areas due to contamination by multiple point and non-point sources and change in seasons. Therefore, a study was conducted to analyze seasonal (pre and post-monsoon) variations in physico-chemical characteristics, contents of metal(loid)s (Al, As, Cd, Cr, Co, Cu, Fe, Mn, Mo, Ni, Pb, Sb and Zn) in riverine floodplain soils under three land uses (agricultural, riverbank and roadside) from areas around the rivers Beas and Sutlej in Punjab, India. Further, analysis was done to assess the ecological and genotoxic risks (Allium cepa genotoxicity assay) posed by metal(loid)s in these soils. It was observed that soil samples under the three land uses were slightly alkaline (pre-monsoon) to acidic (post-monsoon) in nature with sandy texture and low soil organic matter. The levels of most metal(loid)s increased in post-monsoon soil samples under the three land uses, which was attributed to increase in soil organic matter, silt and clay contents in post-monsoon samples due to precipitation, flooding and sedimentation. The ecological Risk Index (58.3–104.5) and Modified Risk Index (145.2–178.9) calculated to analyze the level of ecological risks of metal(loid)s revealed that As, Cd and Sb posed moderate to considerable ecological risks in the agricultural and roadside soils in both seasons. Allium cepa genotoxicity assay indicated that the metal(loid)s in studied soils can cause genotoxic effects in biological systems. Therefore, various steps such as reduction in use of agrochemicals, promotion of organic agricultural methods and decontamination of soils using techniques such as phytoremediation etc must be taken to ensure reduction and containment of metal(loid)s in such riverine floodplain areas.