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This study evaluated soil macrofauna communities and related soil quality metrics in response to a 16-year winter cover crop and tillage trial located in the San Joaquin Valley of California, USA. Overall macrofauna abundance increased by 93% with the addition of cover crops in rotation, and 50% with the elimination of tillage. Taxonomic richness increased by 48% with cover crops in treatments managed without tillage, though there was no effect of cover crops under conventional tillage.Macrofauna abundance was positively related to total soil carbon, water infiltration, and soil aggregate stability. Macrofauna community composition was best explained by soil carbon, water stable aggregate fraction, and cover crop usage.