Parental care, one of the most sexually dimorphic behaviour in mammals, was long thought to be driven mostly, if not exclusively, by gonadal hormones. Over the past two decades, very few studies have challenged this view, highlighting the direct influence of the sex chromosome complement (XX vs XY). The African pygmy mouse, Mus minutoides , is a wild mouse species with a naturally occurring sex reversal due to a third, feminizing X* chromosome, leading to three female genotypes: XX, XX* and X*Y. Here, we show that the sex reversal in X*Y females shapes a divergent maternal care strategy from both XX and XX* females, rather than altering care quality. In addition, the sex reversal is likely to impact the dopaminergic system in the anteroventral periventricular nucleus of the hypothalamus, consistent with one component of maternal care: pup retrieval. Combining neurobiology and behavioural ecology in a wild mouse species subject to natural selection, we evaluate here the neural basis of maternal behaviours and strengthen the underestimated role of the sex chromosome in shaping sex differences in brain and behaviours. Furthermore, we highlight the emergence of a third sexual phenotype, challenging the binary view of sexes.