Bony fishes play a pivotal role in Ecuador's social, economic, and ecological aspects. However, the current state of scientific knowledge on this group remains poorly understood. This study aims to assess the scientific output related to Ecuadorian bony fishes, identifying both well‐researched and understudied areas. A scientometric analysis was conducted using the Scopus database, evaluating 265 peer‐reviewed publications on marine and freshwater bony fishes. The results revealed that 55.5% of studies focused on marine environments, 41.9% on freshwater ecosystems, and 2.6% on mixed environments. The earliest study was published more than 130 years ago, with a marked increase in research output since 2018. Geographic and regional disparities in research efforts were evident, with the Galapagos Islands hosting the highest number of studies at the provincial level and the coastal region leading in regional publications. Additionally, there has been a notable increase in the participation of women in research over time; however, it remains significantly below parity. English was the dominant language in these publications. On average, the delay between data collection and publication was 8.43 years, which may lead to outdated or ineffective management decisions. This underscores the importance of continually updating data to ensure the accuracy of conservation status assessments. Both marine and freshwater species that were endemic have been less studied compared to non‐endemic species. Most of the studied species were categorized as “least concern,” although a significant proportion of species classified as “data deficient” have started to be investigated by Ecuadorian researchers. The categories “endangered” and “near threatened” were the least studied, highlighting the urgent need for conservation initiatives targeting these vulnerable taxa. Biases in the number of studies among families, species, and geographic distribution indicate the need to expand research efforts to underrepresented taxa and regions. This analysis underscores the necessity of diversifying methodologies and broadening the research focus to more comprehensively address the challenges associated with the conservation and management of bony fishes in Ecuador.