Background: Umbilical cord blood (UCB) has become an established alternative source of hematopoietic stem cells with marrow and postmobilization peripheral blood. The presence of a large amount of clots may lead to the deterioration of cord blood quality. To improve UCB quality as a source of hematopoietic stem cells in Japan, we examined factors associated with UCB collection methods from the viewpoint of eliminating the presence of clots. Methods: In August 2019, we requested the directors of 74 certified facilities to provide information on UCB collection methods in Japan. A total of 46 (62.2%) of them responded with valid information on a total of 2,892 UCB collections. In this study, collected UCB without clots macroscopically was evaluated as a high-quality UCB. Results: The 2,891 UCB collections described during the study period were divided to those with (n = 760, 26.3%) and without clots (high quality; n = 2,131, 73.7%). Multivariate analysis revealed single puncture as a factor determining high-quality UCB collection (adjusted odds ratio (ORs): 1.80, 95% confidence interval (CI): 1.3-5.4, P = 0.01). Conclusions: Single puncture is an independent effective factor determining high-quality manual UCB collection in Japan.