Metal pollution poses a significant ecological and public health concern due to its persistence, non-biodegradability, and potential for biomagnification through aquatic food webs. This study investigated the influence of feeding zones and seasonal variations on metal bioaccumulation in six fish species (Sperata seenghala, Cyprinus carpio, Labeo rohita, Hypophthalmichthys nobilis, Catla catla, and Hypophthalmichthys molitrix), collected seasonally (December 2023-November 2024) from the Jinnah Barrage on the Indus River, Pakistan, using different nets. Concentrations of Pb, Cd, Ni, Cr, Zn, and Hg were analyzed in fish muscle, water, and sediment using ICP-MS and CV-AAS. Statistical analyses, including two-way ANOVA and Principal Component Analysis (PCA), were used to evaluate the effects of season and feeding zone on metal accumulation patterns. Results revealed that the bottom feeders accumulated significantly (p < 0.05) higher levels of Pb, Cd, Ni, and Cr than column and surface feeders, reflecting greater sediment exposure. Concentrations of Pb and Cd exceeded the WHO/FAO permissible limits in all seasons across different feeding zones, while Cr levels were higher during winter, spring, and autumn in bottom-feeding species. Seasonal variations were also significant (p < 0.05), with metal levels in fish peaking during winter and autumn and declining in summer. In contrast, water and sediment exhibited the highest metal concentrations during summer, likely due to low flow and higher metal retention in fish during colder months. PCA revealed apparent seasonal clustering between biotic and abiotic compartments. Bioconcentration factors were highest for Hg and Cr, particularly in bottom feeders during summer. Health risk assessment showed Hazard Index (HI) > 1 in winter and autumn for several species (mainly due to Hg, Pb, and Cd), with children at highest risk. The findings revealed that both feeding habits and seasonal conditions regulate metal accumulation in fish, necessitating ongoing monitoring and mitigation strategies for consumer safety.