This study investigates mercury (Hg) dynamics in Pacific Saury (Cololabis saira) across the North Pacific Ocean, specifically off East Japan in 2018. Saury traits vary with total mercury (THg) concentrations in muscle tissues ranging from 0.017 to 0.082 μg g−1 w. w., averaging of 0.042 (n = 46). A positive correlation between THg and saury length (Knob length, 270–319 mm) indicates increased Hg concentration with size. Stable isotopic tracers suggest Pacific Euphausiids (Krill) are significant contributors to the saury diet (>70% of total). Significant correlations between logarithm THg concentration (Log THg) and δ15N (‰) (R2 = 0.70) demonstrate Hg trophic biomagnification, with regional variations. Comparative analysis between the eastern (ENPO) and western North Pacific Ocean (WNPO) indicates differences, with WNPO saury exhibiting lower δ15N values and higher THg levels than ENPO saury. This suggests that the WNPO, located near East Asia, the world's largest Hg emitter, experiences elevated Hg levels in seawater due to anthropogenic release. Overall, this study advances understanding of Pacific Saury's ecological interactions and Hg bioaccumulations, emphasizing the importance of species-specific behaviors and regional influences in ecological studies. Display omitted •The study reveals an increase in Hg concentration with size in Pacific Saury.•Stable isotopic tracers reveal Pacific Euphausiids (Krill) as a major part of saury diet.•Positive correlations between Hg concentration and δ15N (‰) reveal trophic magnification with regional variations.•Elevated saury Hg levels in the WNPO could result from East Asian anthropogenic influence.