This study aimed at analyzing the length-weight relationship and the condition factors of Boleophthalmus pectinirostris originating from the Maro estuary, Merauke Regency, Papua Province, Indonesia. This study was conducted for three months, starting from July to September 2018. This study used a purposive sampling method. The sampling of B. pectinirostris was carried out at two stations by using traps and capturing manually. 80 fish of B. pectinirostris were caught during the study. The length size of males 6.5 to 17.5 cm and weight 1.7 to 44.0 g, while the length of females 9.0 to 22.0 cm and weight 5.4 to 91.4 g. The results showed that the length-weight relationship of B. pectinirostris male reached W=0.0112L 2.8562 and W = 0.0099L 2.8885 , while females W = 0.0062L 3.0907 and W = 0.0052L 3.1211 . The length and weight relationship of B. pectinirostris showed negative allometric for male (b<3) and positive allometric for female (b>3). The condition factor value of B. pectinirostris for males and females ranged from 0.837 to 2.266, and 0.689 to 1.259, respectively.