Designing and implementing more productive, nutrient-efficient, and environmentally sound orchard management systems requires a better understanding of plant and soil responses to more biologically driven management practices. This study explored the effect of orchard floor and N management on soil organic C and N, populations of nematodes, NO3 leaching, and yields in tart cherry (Prunus cerasus L. `Montmorency') production. A baseline conventional orchard system consisting of an herbicide-treated tree row and a full rate of N fertilizer was compared to two modified-conventional and ten alternative orchard floor and N management systems. Living ground cover and the use of mulch with or without composted manure increased total C and the active C and N pools in the soil. For instance, supplemental mulch or mulch applied using a side-delivery mower increased soil C by >20% above the conventional baseline. The size of the active C pool increased 45% and 60% with the use of the species mix 2 ground cover and compost, respectively. Increases in the active N pool ranged from a low of 25% in the soils using mulch or a ground cover mix to a high of 60% when compost was used. As a result, the ability of these soils to provide N to growing plants was enhanced. Total soil N increased in the treatment using natural weeds as ground cover and the full rate of N fertilizer. It is likely that weeds were able to convert significant amounts of fertilizer N into organic forms. Increasing the active C and N pools stimulates microbial activity, and may favor populations of nonplant parasitic nematodes over plant parasitic species. Using a trunk-to-trunk cover crop mix under the cherry trees reduced NO3 leaching by >90% compared to a conventional, herbicide treated soil, even when N fertilizer was used at full rate. Nitrate leaching also dramatically diminished when N fertilizer was fertigated at a reduced rate or when compost was used as N source. Alternative orchard floor and N management did not reduce yields when compared to the baseline conventional treatment.