I came up with this:
1) Delete C:\Users\yourusername\AppData\Local\Microsoft\VisualStudio\11.0Exp
2) Delete C:\Users\ceelmaa\AppData\Local\Your Company
3) Delete registry key HKEY_CURRENT_USER\Software\Microsoft\VisualStudio\11.0Exp_Config
4) Delete registry key HKEY_CURRENT_USER\Software\Microsoft\VisualStudio\11.0Exp
If that doesn't work, you might want to attack the 11.0 directory & and registry keys. This will affect your visual studio too(you might lose packages).
I think you can reproduce this "bug" if you:
1) compile & run your isolated shell application
2) remove the source code and isolated shell application,
3) do step 1.
I don't understand exactly why this should be happening.
Note: Sometimes it's important to "Clean" the solution and "Rebuild solution". If you run the isolated shell directly, necessary DLLS won't be compiled, etc.