Abstract. The management of streams and rivers can be aided by knowledge of reference conditions. Data from .1000 sites across New Zealand was used to develop a technique to estimate median ammoniacal-N, clarity, Escherichia coli, filterable reactive phosphorus, nitrate-N, suspended solids, and total nitrogen and phosphorus values under reference conditions for streams and rivers as classified by the River Environment Classification (REC). The REC enabled us to account for natural variation in climate, topography and geology when estimating reference conditions. Values for minimally disturbed sites (i.e. ,5% in intensive agriculture) were generally within the confidence limits for estimated reference values. Metrics that described: (1) the percentage of anthropogenic contribution to analyte values; and (2) the degree of enrichment beyond the reference conditions, showed that lowland sites classified as warm-wet, warm-dry or cool-dry exhibited the greatest anthropogenic input and enrichment. The consideration of natural variation by REC class informs the setting of water quality objectives through avoiding water quality limits or targets that are either too restrictive, and impossible to meet (e.g. below reference conditions), or too high, such that they have little ecological benefit. We recommend reference conditions be considered by regulatory authorities when assessing water quality impacts, objectives and limits.