Non-indigenous parasite fauna of freshwater fish has not been studied extensively in Croatia, despite the long history of introductions and translocations of alien fish species into inland waters. Negative implications for aquaculture production and wild native fish species have been frequently associated with the introduction of non-native parasite species. Hence, the present paper attempts to lay out a historical overview of the suspected localities, time frames and pathways of introduction for non-indigenous fish parasites into inland waters of Croatia, therefore producing a list of species. In total, 16 non-native fish parasites have been recorded in inland waters of Croatia, aquaculture establishments being identified as initial points of introduction. However, a paucity of information exists on the overall prevalence of infection as well as the economic impact on aquaculture production. In addition, limited information is available about the presence and potential ecological impact of non-indigenous parasites on endemic fish fauna in areas of high biodiversity, such as the water bodies of the Adriatic Sea Basin. Therefore, there is an urgent need and opportunity for multidisciplinary cooperation between different stakeholders, including government, scientists, in both biological and veterinary disciplines, and the industry, with the aim of extensive surveys to determine the potential impact on aquaculture production and wild fish population of high conservation value.