So Star Trek 2 (or whatever it will be called) is supposedly shooting in 3D. Given JJ Abrams love of the anamorphic format I have to wonder if perhaps he's aiming to be the first (that I know of) to shoot anamorphic 3D. I would certainly be interested to see how that would work.
It would seem a technical nightmare to pull off and would require entirely new camera rigs to be developed. For one thing I imagine matching lens distortions would create some serious hurdles, especially given the "flawed" nature of anamorphic optics. I suppose it's worth pointing out that I loved the anamorphic flares in the 2009 Star Trek film, despite many of my colleagues' distaste for it.
I seriously doubt anamorphic 3D will happen on Star Trek 2 but I'd love to see someone try.