The pastoral grazing of farmed red deer (Cervus elaphus) is common in New Zealand. However, red deer have a natural instinct to seek out water and wallow in it. In headwater catchments, red deer frequently create a wallow in a wet area connected to a waterway causing substantial contamination via excretal returns and erosion. It is not sufficient to fence off wallows as deer will make new ones nearby. Hence, this study aimed to determine whether the fencing-off of the old wallow and the creation of a "safe" wallow unconnected to a stream would mitigate contaminant loss. The study used paired catchments with the calibration year establishing the relationship between the catchments for fortnightly base flow samples and storm flow samples taken at the same time in each catchment. After a year, the treatment (safe wallow and fencing-off) was imposed and a new relationship established. During the calibration year, median concentrations in stream flow of nitrogen (N) and phosphorus (P) species, suspended sediment (SS), and the faecal indicator bacteria, E. coli were generally in excess of recommended guidelines for lowland water quality and contact recreation in New Zealand (guidelines = 9 μg dissolved reactive P litre -1 , 30 μg total P litre -1 , 444 μg nitrate-and nitrite-N litre -1 , 0.9 mg NH 4 + -N litre -1 at pH 7, 4 mg SS litre -1 , and 260 MPN 100 ml -1 ). Loads of P(up to c. 3 kg Pha -1 ) and SS (up to 4 Mg ha -1 ) were among the highest measured for pastoral catchments in New Zealand. However, after A08042; Online publication date 27 January 2009 Received 31 July 2008 accepted 10 December 2008 the treatment was imposed, loads decreased by up to 90%. Analysis indicated that the decreases were significant for P species, SS, and E. coli, while the decrease in NH 4 + -N was not significant (P = 0.053). The use of safe wallows in conjunction with fencing off and planting the old wallow is recommended as a method for mitigating water quality problems associated with deer wallows.