Twenty commercial tomato production systems were compared in a multidisciplinary on farm study. The aim was to determine if organic (ORG) and conventional (CNV) systems differed in terms of agronomic criteria or indicators of underlying ecological characteristics. Field level measures of inputs, yields, fruit quality, arthropod abundance and management operations were made. Also, multiple samples within each field were taken to measure soil chemical and physical properties, root pathogen populations, disease incidence, and pest damage levels for multivariate analysis. Management effects on agronomic criteria (yield, fruit quality, pest damage) were small, whereas differences in soil N pools, microbial activity, pathogen populations and arthropod communities between ORG and CNV sites were sufficiently robust to be distinguished from site to site variation. Relationships between management, crop productivity and fruit quality will be discussed.