Maybe the reincarnation stuff could tie in with the doctor X storyline and the biolab you can get, or expand on it in some way. Something like this: at some point you get some sort of tech that lets you bring back your dead gals as something (whatever that something is), and then, when you get your hands on doctor X and the biolab, you can then upgrade said something to something sexybetter.
Dioxine's going to make several more characters Dr.X alike and each one will provide some bonuses.
I hope it is somehow Solarius's dossier stuff inspired (when you get the dossier and a random mission occurs from a list. I've got a couple: some random scientist defence and an old invisible kickass ninja capture/kill from, actually, a lot of the possible ones)
And it's cool, it's really cool to have that types of missions: it generates randomness in the storyplot which is always broadening and narrowing, but
always has the same bottlenecks you have to pass through to make the next step.
So... a single unique capture can give some tech, and different combinations of these captures might lead to a solution that we all waiting for: the cyborgs (but not the Syns, they are sexy and different)