This study investigates Pb, Cd, and Cr in the suspended particulate matter (SPM), sediments, and green mussels from Cilincing and Kamal Muara, Jakarta Bay and estimates their potential human health risks. The results showed that the metal levels in SPM from Cilincing ranged from 0.81 to 1.69 mg/kg for Pb and 2.14 to 5.31 mg/kg for Cr, while in Kamal Muara ranged from 0.70 to 3.82 mg/kg for Pb and 1.88 to 4.78 mg/kg dry weight for Cr. The levels of Pb, Cd, and Cr in sediments from Cilincing ranged from 16.53 to 32.51 mg/kg, 0.91 to 2.52 mg/kg; and 0.62 to 1.0 mg/kg whereas in Kamal Muara ranged from 8.74 to 8.81 mg/kg; 0.51 to 1.79 mg/kg, and 0.27 to 0.31 mg/kg dry weight, respectively. The levels of Cd and Cr of green mussels in Cilincing ranged from 0.014 to 0.75 mg/kg and 0.003 to 0.11 mg/kg; while in Kamal Muara ranged from 0.015 to 0.073 mg/kg and 0.01 to 0.04 mg/kg wet weight, respectively. Pb was not detected in all samples of green mussels. The Pb, Cd, and Cr levels in the green mussels were still below the permissible limits set by international standards. However, the Target Hazard Quotient (THQ) for adult and children in several samples were higher than one indicating potential noncarcinogenic effects to consumers due to Cd accumulation. To reduce the detrimental effects of metals, we suggest maximum mussel consumption of 0.65 kg for adults and 0.19 kg for children in a week based on the highest level of metals. © 2023 Elsevier Ltd