JPG and RAW files are not grouped together.

I am finding that my RAW and JPG files are not grouped together.  They show up on the Grid View as JPG for the JPG file and RAW + JPG for the NEF(RAW) file.  This does not seem to be consistent through out the folder.  Some of the pictures are grouped together and others are not.  The ones that are not grouped together have been auto-stacked and then unstacked.  I am not sure if this is what caused the seperation of JPG and RAW files.  I did try to take a picture that I had auto-stacked it  and then remove it and it did not sepearate.  The "Treat JPG files next to raw files as seperate photos" option is turned off, like it is in my Lightroom 3.

This is what I'm talking about:
Show subfolders are on:
In windows Explorer:
In the Import Dialog:
Where are the files?
If I click on the Folder 2014_12_14... all the files from all folders will populate.

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