ABSTRACT Shallow estuarine habitats are well recognized for providing a positive correlation to the abundance and diversity of juvenile fish species. This has been associated with the hypotheses of refuge from predators and the availability of food. Therefore, this study aimed to evaluate the importance of two adjacent habitats to mangrove fringes (area adjacent to pneumatophore zone and mudflat) as an ecological habitat for Diapterus auratus juveniles. Sampling was carried out in the rainy (January–July 2016) and dry (August–December 2016) periods. This study indicated that D. auratus juveniles did not show significant differences in abundance and biomass between adjacent habitats. However, univariate analyses found there was a significant increase in fish abundance in the dry season, due to influx of young-of-the-year. Further, the size-frequency of D. auratus showed a recruitment pattern recorded between August and January, suggesting a broad spawning period between the end of the rainy season and a recovery period between March and May. There were distinct changes in the diet between seasons for D. auratus, according to the dendrogram of the food eaten by the fish. The combined results from the distribution and feeding ecology suggest a connectivity among adjacent areas, and indicate that both habitats provide critical foraging and refuge habitat for D. auratus in this tropical estuary.