The paper deals with the genomic evaluation of retained placenta RP, metritis/ endometritis MET, and cystic ovarian disease CYS and their involvement in the selection programme of Holstein cattle. A procedure for the estimation of genetic parameters and genomic breeding values was proposed. The data set included farmers’ records of 127 thousand lactations from 109 farms for RP, 185 thousand lactations from 131 farms for MET and 115 thousand lactations from 87 farms for CYS. The lactational incidence was 6.9% (RP), 12.8% (MET) and 9.2% (CYS). The single-trait animal model equation included fixed effects of herd-year-season of calving and parity of the cow, random direct additive genetic effect and residual effect. The single-step genomic prediction ssGBLUP was based on more than 50 000 SNP-genotyped individuals. Heritability for all traits did not exceed 2%. Favourable correlations were found between reproductive disorders resistance, fertility and longevity traits. The correlation between CYS and milk protein yield indicated a genetic predisposition to cystic ovarian disease in high-producing cows. All significant correlations between health traits (clinical mastitis, claw and feet disorders, reproductive disorders) were positive indicating that the selection for improvement of one health trait would induce a favourable selection response in the others.