The possible effects of disruptions in the geomagnetic field caused by different man-made constructions have been increasing considerably in recent years. These include, among others, the development of wind farms located in the sea and increased numbers of underwater cables. The objective of this study was to determine whether a magnetic field (MF) of 10 mT or a 50 Hz electromagnetic field (EMF) of 1 mT affected the developmental instability of the inner ear organ, which is responsible in fish for hearing and balance, in rainbow trout (Oncorhynchus mykiss) reared in a laboratory for 37 days (13 days in egg stage and 24 days in larval stage). This was done by analyzing the fluctuating asymmetry (FA) of otolith size. The MF and EMF values applied in this study are those recorded in the vicinities of underwater alternating current (AC) and direct current (DC) cables, respectively. The influence of MF on otolith FA was found to be statistically significant, with the highest significance occurring in the group of youngest larvae of 5 dph (compared to larvae 15 and 23 dph). Otolith FA was also higher in larvae exposed to the EMF compared to control conditions, but the differences were not statistically significant. Thus, we can conclude that underwater constructions and cables which emit a MF of 10 mT or higher can affect living organisms that are within a distance of a few meters, especially those (as in the case of trout) in settled life stages. Display omitted •Trout embryos and larvae exposed to static magnetic field of 10 mT and a 50 Hz electromagnetic field of 1 mT.•Significant effect of magnetic field on otolith fluctuating asymmetry.•No effect of electromagnetic field on otolith fluctuating asymmetry.•Increased otolith fluctuating asymmetry indicates increased organism instability in stressful conditions.