||Functional diversity of fish communities has been measured according to (a) interspecific variability, assuming that intraspecific variability is negligible, or (b) morphological differences, as good descriptors of complex functions, such as diet. These two assumptions have been scarcely tested on the individual level, especially in species-rich tropical ecosystems. Here, we adapted intraspecific specialisation (ISpe) and intraspecific originality indices (IOri) to assess complementary components of intraspecific variability. Next, we applied these indices to evaluate the intra- and interspecific variability of morphological and diet traits in two contrasting Brazilian stream-dwelling fish assemblages (rainforest and savannah). We also compared correlations between morphology and diet at the individual and species level to test whether accounting for intraspecific variability increases the predictability of diet due to morphological differences. Significant contributions of intraspecific variability to differences between fish were revealed for morphology and diet. Intraspecific variability in the diet was higher than that in morphology in both assemblages. The ISpe was positively correlated to IOri in the diet of both ecosystems. The morphological-dietary relationships were significant but weak at both individual and species levels. Our findings highlight the importance of measuring individual variability and accounting for complementary components of the intraspecific variability (ISpe and IOri). Importantly, we showed that the variability in morphology does not predict diet variability at both intra- and interspecific levels. Thus, high intraspecific variability in morphology and diet challenges the use of functional traits measured at the species level to describe the functional diversity of different fish assemblages.