In order to investigate the reproductive dynamics of the ichthyofauna in the Brazilian Pantanal, this study examines the spatial and temporal distribution of ichthyoplankton, taxonomic composition, and its correlation with environmental factors within one of the most important sub‐basins, the Taquari River. Egg and larvae collections were conducted at 11 sampling points between October and March of 2017/2018 and 2018/2019. Significant differences were observed between collection points, months, and years, with higher ichthyoplankton densities in the Coxim and Taquari rivers, particularly between November and January. Twenty‐eight genera and/or species of fish were identified, including 10 long‐distance migratory species. Egg density showed a negative correlation with water temperature and rainfall. For larvae, water transparency and rainfall were both significant, negatively influencing larval abundance. However, different species tend to occur in environments with distinct abiotic qualities. Yolk‐sac, preflexion, and flexion larval development stages were distributed throughout the sub‐basin, especially near the Pantanal. Considering the data and analyses presented in this study, the importance of connectivity between these environments, specifically between the plateau and Pantanal, is evident, highlighting the significance of the entire sub‐basin for fish reproductive processes. Therefore, research focusing on the ecological processes influencing the distribution of ichthyoplankton offers valuable insights for ecosystem conservation and aids in effective environmental management.