The effects of chronic and periodic peaks of un-ionised ammonia (UIA-N) exposure on eye health and cataract formation in juvenile Atlantic halibut, Hippoglossus hippoglossus, were examined. Fish with mean initial weight 51.7 g (SD 13.2) were exposed to five treatments consisting of control group and three groups (ChronicLow, ChronicMedium and ChronicHigh,) chronically exposed with UIA-N of 0.06, 0.12 to 0.17 mg/l, respectively, for 62 days at 11.9°C, pH 8.0 and salinity 34‰. Furthermore, a fifth group (HighPulse) was exposed to the same high levels as ChronicHigh for a short daily period (peak of 15 mg/l 30 min after exposure, 10 mg/l 1 h after exposure and 1.2 mg/l 3 h after exposure). In the subsequent period of the experimental study (from day 63 until day 100), no ammonia was added to the water. Mean weights were significantly lower in groups exposed to chronically high ambient ammonia concentrations compared to corresponding control group throughout the experimental period. The sampled fish exhibited signs of mild cataract formation, although the results showed no clear evidence that the ammonia treatments contributed to differences. Minor differences were found in measured muscle free amino acids, which could be used to explain potential changes in buffering capacity. The eye histidine status differed significantly at day 62, and osmotic differences in the eye lenses (measured as differences in N-acetyl histidine) were found in all group exposed to chronic levels of ammonia.