Hm... I only noticed that I have the instruments twice after the upgrade, i.e. I had to download the full libraries and install them beside the standard libraries.
Now I have all my instruments as full libraries, and well organised under the A, B, C, ... categories. I don't need to look in the “Download Instruments” category again.
I always wondered why some instruments were installed in the “Download Instruments” category and some in the A, B, C ... categories. This is confusing, because even the installed instrument folders on the hard drive have different numbers/names for standard and full libraries. I think these are relics from the DVD era. Don't know for sure.