There appears to be a mix of experiences with the new D7100 although the Flickr thread bellows shows that the images work with LR 4.4, even in 1.3x crop mode.
Try shooting a few new raw files and try again. Even try a different card reader, or connecting the camera directly and keep well away from Nikon Transfer or other Nikon software.
If that makes no difference try converting NEF to DNG (see following post for links) and see if that works.
http://www.flickr.com/groups/nikond7100/discuss/72157633151036231/