I wouldn't necessarily describe it as segregating, as much as creating space where people go, if they want to go there. It's definitely not forced, but more voluntary. This has been an approach that has also been used in some shelter contexts, especially for folks who are trans.
If they only have a men's side and a women's side, what would best fit with their gender identity and how can they make them feel safe and welcome? There's some really interesting work out there that's happening in a few cities.