One method is to shoot RAW + JPEG and allow the D90 to process the images using whatever in-camera processing you want to do. Shoot JPEG Fine, Large size. Use whatever Active D-Lighting level you think the scene needs.
The D90 will perform in-camera chromatic aberration reduction, and the in-camera D-Lighting, or whatever other adjustment parameters you decide to apply. You can see a comparison of two scenes, one shot with the D90, the other with the Canon XSi, and compare the results of Nikon's in-camera chromatic aberration reduction against a camera that does not correct for lens chromatic aberration.
It's possible that the D90's in-camera image processing in RAW + JPEG will produce a file that's as good, or better, than what you an produce from a .NEF file converted later in software, since the D90 is a "smart" camera and Nikon has programmed it with the ability to profile away CA, as well as do noise reduction and in-camera sharpening that is better than what anybody except a very competent Photoshop user or Nikon Capture user can produce.
I prefer to shoot RAW + JPEG Large Fine with sharpening in-camera set pretty high, so I can edit images using the JPEGs, and see minor focus problems easier du to the high in-camera sharpening....I send the 'bad' images to the trash, label them, then send them back to the .NEF folders, where the color-coded reject JPEGS line up right next to their parent NE files, and then go down the list and cull out both the bad JPEGs and the bad .NEF files.