Hi guys,
After checking out Cubase Pro 9 I found out that some plugins weren’t showing up. In my case the first one I missed was Kontakt! So I discovered that the problem wasn’t that it was blacklisted or anything like that, but apparently the VST plugin paths that always used to get inherited from previous versions weren’t there this time, hence the reason why some stuff wasn’t showing! The solution is to simply re-add the VST plugin paths and rescan, after that the plugins are back in the list 
I put a short video up to explain the issue.
Good job Steinberg! 