It's hard to begin an argument with the position of there is no reason to do something. The only way to do it would be erect a straw man, then tear it down.
All women in prison are at risk of sexual violence. That comes from other prisoners (including cis women), and from officers.
Focussing attention on the small number of trans prisoners, and ignoring the risk from cis prisoners and from staff, means that women will continue to be at risk of sexual violence.
Yes but females are also subjected to sexual violence from males.
Maybe the most important is you don't want prisoners getting pregnant.