Stream geodiversity is a novel concept that is used to describe the variety of geological, geomorphological and hydrological features at a reach‐scale level. In this study, we investigated the relationship between geodiversity and ecological indicators based on fishes, benthic macroinvertebrates and diatoms used for the ecological classification of rivers in line with the Water Framework Directive (WFD) 2000/60/EC. We examined whether geodiversity can be used as a proxy indicator of ecological quality, and we further tested if geodiversity can explain a significant amount of taxa richness variation. We hypothesized that undisturbed or minimally disturbed rivers will be more hydrologically and geomorphologically diverse, and as such, the ecological quality of streams will improve with geodiversity. We also attempted to quantify the probability of achieving ‘good’ ecological quality in relation to geodiversity levels through ordinal regression analysis. Although we did not find a significant relationship between geodiversity and taxonomic richness for any of the three freshwater groups, our results showed positive effects of geodiversity on all three ecological indicators. We also found that the likelihood of achieving the WFD target increases significantly with higher geodiversity. Our findings indicate that geodiversity can potentially serve as a proxy of ecological quality and highlight the need to consider the inclusion of geodiversity measures in ecological quality assessment systems.