Lightroom 4.4 won't recognize NEF files from my D5100

I've been using Lightroom 4 for over a year now to process NEF files straight from my memory card. For some reason, LR has stopped recognizing my NEF files. The only change was that I upgraded to 4.4 recently. Has anyone else experienced this? I did find a free adobe program that converts NEF to DNG files, but it's an extra step I don't want to have to mess around with if I don't have to.

LR 4.4 recognizes more cameras than the prior versions and doesn’t forget them. 
Either you’re not using LR 4.4 like you think you are—this would be pretty obvious so I assume you are, or the files are being corrupted or otherwise changed so they’re no longer recognized. 
The most common thing that causes NEFs to be unrecognized is using an older version of Nikon Transfer V1 or ViewNX which doesn’t know how to handle the header information in newer model cameras.
If you aren’t using an older version of Nikon programs with your NEFs, and instead using LR to copy the files from your camera memory card to the computer, then it is possible that LR 4.4 is using the USB functions of your computer differently than previous versions of LR and something with your USB system (cables, drivers) is iffy and that is causing corruption of the files.  It could also be a bad card that is being transferred from faster than before and this is causing issues.
The way to test for LR-copying cause the problem is to use some other method to move files from the memory card to your computer, a card reader being most common, and see if the files are recognized, then.

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