The Wadden Sea is a transition area between land, rivers, and the North Sea. It is of great ecological importance for a wide range of fish species that use it in the course of their life cycle for various purposes. It is a highly dynamic environment and is subject to strong seasonal patterns and annual variations in abiotic conditions. The Sylt-Rømø Bight (SRB) is a semi-enclosed tidal basin in the northern Wadden Sea between the islands of Sylt (Germany) and Rømø (Denmark). Monthly monitoring data of juvenile fish taken in the SRB from 2007 to 2019 were analyzed to determine the changes in species composition in comparison to previous monitoring programs (1989–1995). The long-term trends, common patterns, and potential effects of environmental parameters (sea surface temperature (SST), salinity, chlorophyll a, and the North Atlantic Oscillation (NAO) winter indices) were determined. In total, 55 species were recorded and only 22 of these together accounted for more than 95% of the total abundance for the entire monitoring. Results showed a changed species composition as we did not find two boreal, one Lusitanian, and one circum-temperate species recorded in the previous programs. Instead, one boreal, six Lusitanian, and one Atlantic species were observed for the first time. The fish community was dominated by high seasonal fluctuations of abundance with either dome-shaped, increasing, or decreasing trends. Dynamic Factor Analysis (DFA) partitioned the fish community into three seasonal assemblages based on SST preferences. Redundancy Analysis (RDA) revealed that environmental parameters explained 29 % of the variations in the fish community. These variances were partly a result of the spring immigration of Lusitanian species and the emigration of boreal species and vice versa in autumn. The absence of four previously reported species and the addition of eight new species support the hypothesis that warm-adapted species are increasing in the Wadden Sea. The inclusion of these seasonal variations into conservation and management practices is critical to the sustainable management of marine and coastal ecosystems covering spawning, nursery, and feeding grounds.