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Soils in the hot, arid topical regions are low in organic matter and fertility and are structurally poor. Consequently, these soils suffer on account of poor physical, chemical, and biological soil quality traits, leading to miserably low crop yields. Long-term use of conjunctive nutrient management and conservation tillage practices may have a profound effect on improving the quality of these soils. Therefore, the objective of this study was to identify the key soil quality indicators, indices, and the best soil- and nutrient-management practices that can improve soil quality on long-term basis for enhanced productivity under a pearl milletbased system. The studies were conducted for the Hissar Centre of All-India Coordinated Research Project at the Central Research Institute for Dryland Agriculture, Hyderabad. Conjunctive nutrient-use treatments and conservation tillage significantly influenced the majority of the soil quality parameters in both the experiments. In experiment 1, the key soil quality indicators that significantly contributed to soil quality in a rainfed pearl milletmung bean system were available nitrogen (N, 35%), available zinc (Zn; 35%), available copper (Cu; 10%), pH (10%), available potassium (K; 5%), and dehydrogenase assay (5%). The three best conjunctive nutrient-use treatments in terms of soil quality indices (SQI) were T3, 25 kg N (compost) (1.52) > T6, 15 kg N (compost) + 10 kg N (inorganic) + biofertilizer (1.49) > T5, 15 kg N (compost) + 10 kg N (green leaf manure) (1.47). In experiment 2, under a rainfed pearl millet system, the key indicators and their percentage contributions were electrical conductivity (15%), available N (19%), exchangeable magnesium (Mg; 18%), available manganese (Mn; 13%), dehydrogenase assay (19%), microbial biomass carbon (C; 5%), and bulk density (11%). The three best tillage + nutrient treatments identified from the viewpoint of soil quality were T1, conventional tillage (CT) + two intercultures (IC) + 100% N (organic source/compost) (1.74) > T3, CT + two IC + 100% N (inorganic source) (1.74) > T4, low tillage + two IC + 100% N (organic source/compost) (1.70). The findings of the present study as well as the state-of-the-art methodology adopted could be of much interest and use to the future researchers including students, land managers, state agricultural officers, growers/farmers, and all other associated stakeholders. The prediction function developed between long-term pearl millet crop yields (y) and soil quality indices (x) in this study could be of much use in predicting the crop yields with a given change in soil quality index under similar situations.