Fine-grained sediments are a natural component of river systems. Human activities generate additional sources of fine sediment. In mountainous areas, the anthropogenic inputs of fine sediments are associated with forestry. The aim of this study was to analyse the differences in the macroinvertebrate communities between the reference and caused by forest harvesting activities increased influx of fine-sediment to mountain streams. The tested hypothesis was that the macroinvertebrate communities will differ depending on the intensity of forest harvesting practices in the stream catchment that causes excessive influx of fine sediment into the stream. The reintroduction of beavers in the study area, and the formation of in-stream beaver dams, contribute the accumulation of sediments in stream sections with slower water. Thus, it was also assumed that by capturing and storing fine sediments, may contribute to the restoration of the natural structure of the benthic communities downstream of the ponds. The study was carried out in a mountain stream catchment area (Carpathians, Poland), in which inflow of fine sediments in the stream sections varied in intensity. The study was conducted over three years (2018–2020). The extensive use of forest roads, timber skidding trails, and timber storage areas produced fine sediments that clogged the interstitial spaces between the stones in the riffles, limiting the presence of rheophilic taxa associated with coarse-grained substrates. The reduction of the number of scrapers and shredders (i.e. primary consumers) associated with the influx of fine sediments may significantly affect the entire food-web structure in stream ecosystems. The capture and deposition of fine sediments in beaver ponds may accelerate the revitalisation of the flowing sections of the stream. Beaver-induced sediment management is strongly recommended as a beneficial practice that could contribute to ecological preservation and the potential of streams, particularly in mountain areas.