That's the same as the old Nikon Capture. What I used to do with that was sort the NEF files in catorgories with Photo Mechanic, and then run seperate batch runs with Nikon Capture. Then I'd have to go back and tweek with Photoshop to get them just right. Big time pain in the butt.
With a program like Aperture (which takes a while to get to learn, but once you get the hang of, is great), you can tweek each shot individually without opening it, and then batch the entire thing. If one shot in a series is a little dark, you can simply lighten it up without touching the others, rather than copying it into a different folder, batching it, and then copying it back. This is a huge time saver. With these programs (Aperture isn't the only one, I just happen to like it), you're actually working on a preview of the image, not the image itself, and the changes are saved into what's called a 'sidecar' file attached the image. When you batch the images, it refers back to the sidecar file for the settings. This is what the major professional programs are doing now, and I'm disappointed that Nikon hasn't gone this direction for it's flag ship RAW program.
Nikon NX will probably find it's place for doing very precise work, and "un-fishing" the 10.5mm lens (which when I get around to getting, I might use NX for), but for batching big jobs on deadlines, it's not cutting it. David Buzzard