A total of 32 sweet potato genotypes were evaluated to assess the genetic diversity based on quantitative traits and molecular markers, as well as stability for yield and related traits. Wider variability was observed for the traits like vine length (181.2–501.3 cm), number of leaves/plant (103.0–414.0 cm), internodal length (3.20–14.80 cm), petiole length (6.5–21.3 cm), leaf length (8.50–14.5 cm), leaf breadth (8.20–15.30 cm), leaf area (42.50–115.62 cm2), tuber length (7.77–18.07 cm), tuber diameter (2.67–6.90 cm), tuber weight (65.60–192.09 g), tuber yield (7.77–28.87 t ha−1), dry matter (27.34–36.41%), total sugar (4.50–5.70%) and starch (18.50–29.92%) content. Desirable traits such as tuber yield, dry matter and starch content have shown high heritability (>60%) with moderate to high genetic advance. Under molecular analysis, a total of 232 alleles were observed from all 32 microsatellite markers, which ranged from 4 to 14 with an average of 7.77 alleles per locus. In the population, the average observed heterozygosity (0.51) was higher than the expected heterozygosity (0.49). The contribution of genotype, genotype by environment interaction to the total variations was found to be significant. Based on the multi-trait stability index (tuber length, tuber diameter, tuber weight and tuber yield), genotypes X-24, MLSPC-3, MLSPC-5, ARSPC-1 and TSP-12-12 were found to be most stable. Among them, the high-yielding and stable genotypes TSP-12-10 (26.0 t ha−1) and MLSPC-3 (23.9 t ha−1) can be promoted for commercial production or used as parental material in future crop improvement programmes.