Have you talked to them to see if they have an option to tell you about the pregnancy? You won't see them as pregnant in the status screen until they tell you about it, if I'm not mistaken.
Viewing post in Aric's Expansion Rebred
There were a lot of changes to fertility in deviates code that I hadn’t noticed that heavily penalize non-standard races on top of the long ovulation timers. I am working to correct those ASAP though and will release a new version with those modifications heavily reworked to keep from penalizing any non-standard race playthrough soon.