You can only do 1080p 3D @ 60hz with a DVI-D input, apparently the new Optoma eh501 that I just posted about supports it through its DVI-D according to its own manual (but not yet confirmed by an AVS user). It will theoretically be the first low-cost 16:9 projector I know of to where you can finally play a game at full 1080p 3D @ 60hz. It streets for around $1700 though, so still out of the range of some.
Note that the HZ you end up with isn't the same as what you start with, the difference is called the pulldown mode. A 3D display isn't the same because it is per eye, so 144hz is more like seeing 72hz, and 120hz is more like seeing 60hz, but the problem becomes that in 3D you are actually just having 1080p 24hz triple flashed to 72hz per eye, which if fine for movies, but gaming requires an even faster originating framerate.
With these projectors @ 1080p 3d, you are essentially limited in games to seeing a reduced frame rate, even if the 24hz is converted to 72hz it doesn't increase the allowed # of frames per second, it is only repeating the same frame over again to give the effect of smoother motion. Since games need a higher frame rate than movies (even after being triple flashed) and they need higher refresh rates in general, that is where the problem is, that is why 720p @ 60hz > 1080p @ 24hz, regardless of any frame magic enhancing tech.