It is well documented that the most effective sexuality education programmes employ a whole-school learning approach. More specifically, when schools and their leaders and teachers embrace such an approach, they view student learning in the context of the whole experience of being at school -- from the classroom, to the home and the partnerships schools form with the local community. In parallel to this, people born with intersex variations report the lack of a systematic and broad approach to recognition and inclusion of intersex variations in schools due to strong 'normativity' messaging, including that pertaining to the body. Similarly, schools fail to engage mindfully with contemporary content that promotes a positive and diverse understanding of intersex in educational spaces, guidelines, policies and the curriculum. In line with community expectations outlined by the Darlington Intersex Community Consensus Statement, peer-led intersex rights-and-health-advocacy, and intersex-affirming scholarship, this paper advocates for and seeks to offer recommendations on how schools might enact a whole-school approach for sexuality education that is inclusive, affirming, visible and supportive in promoting and upholding the rights and health of students with intersex variations.