Do you have the latest update applied to Kontakt?
Do you have the latest Windows Update maintenance applied?
Please right-click on the launch icon for Sonar, and post the path for it. It seems to me that you might be running a 32-bit Sonar in your Windows 7 x64. You can certainly do that, but you are then limited to only being able to access plugins that are 32-bit. NO 64-bit plugins will be able to be loaded.
I am quite curious as to what you have installed, and the steps you took during installation, and also if you did any attempts to uninstall and reinstall I would like to know precisely what steps you took.
I am quite sure that whatever is going on with your system is completely due to either installation problems, possibly a failure during uninstall to completely remove things like hidden folders and registry keys and such, or possibly some sort of situation where you have a 64-bit Windows and a 32-bit Sonar, and maybe some of the 32-bit Kontakt wasn't properly installed.
But then again, as I typed the above, I also recalled that you said your issues don't appear in the stand-alone version of Kontakt. That would seem to point to something amiss in Sonar, but I am also wondering if that stand-alone Kontakt is 32-bit or 64-bit, because that could be different circumstances if you are running a messed up 32-bit Kontakt in a 32-bit Sonar.
Bob Bone