Dataset used for the paper “Maternal serum concentrations of bisphenol A and propyl paraben in early pregnancy are associated with male infant genital development” published in Human Reproduction (https://doi.org/10.1093/humrep/deaa045) and containing data from the Cambridge Baby Growth Study. Uncompressed Microsoft Excel (.xlsx) file (335 rows including header; 79 columns including two for maternal and infant dummy identifiers) containing data relevant to the publication collected as part of the Cambridge Baby Growth Study. Pregnant women were recruited at 10-17 post-menstrual weeks of gestation from the Rosie Maternity Hospital, Cambridge (2001-2009), and their offspring followed up for 24 months. Maternal blood was collected at enrolment, and serum levels of 16 phthalate metabolites, 9 phenols (including bisphenol A), and 6 parabens were measured using liquid chromatography/tandem mass spectrometry. The Index of Multiple Deprivation was estimated from residential post codes. At 0, 3, 12, 18, and 24 months of age male offspring were assessed for cryptorchidism, hypospadias, anogenital distance, penile length, and testicular descent distance. Missing data are presented by the term “#NULL!”. For further information about the study please contact Dr Benjamin G. Fisher (email: bgf20@cam.ac.uk; tel.: 0044 1223 768618).