Illustrator Smart Objects are "Linking" to each other in PS file.

This strange behavior started after I upgraded to the latest PS CC which includes the "linked" vs "embedded" smart object feature.
When I edit previously created PS files that contain mulitple linked Illustrator smart objects, an edit to one smart object will update a different smart object within the same file. These are not duplicates of a single smart object layer, they are completely independent smart objects, containing different graphics.
Has anyone else seen this? Is there anyway to break the link between all Illustrator graphics within a document so this won't continue to happen?

Here'a link to the original file. http://adobe.ly/1d6uwA1
This was created with PS CS6. I recently had to do some modifications to it, and that's when I noticed the strange behavior with SO. Of course when I tried to duplicate the weirdness this morning, I was unable to do so. I know for certain though, that on two different occasions I updated one SO layer and the it replaced the contents of a different SO layer.
I did notice some other oddities while playing with this today. Here's what I did.
Open the file, and save with a new name to make a copy.
Edit a couple SO layers with Illustrator
Close the file and save
Open the file back in PS and again edit a SO
This time when I save the SO I get this message "This file has been modified outside of Illustrator. Do you want to continue". I say yes to save it. I only get this message after I have closed the file and reopened it for more edits.
Another oddity; if I leave a SO open in Illustrator by just saving without closing the file. Then close the Photoshop file linked to that SO. When I open a new Photoshop file and try to open a SO within it, PS thinks the SO that was left open is the one I want to work on. I have to close out the previous SO to get the new one to open correctly.
I work with a lot of Illustrator SO's in PS. So I will continue to monitor what happens, and try to pay very close attention to what steps I took if and when the weirdly linked SO layers happens again.

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