So. For everyone who is curious.
I searched a bit online and plugins not showing up in the logic list seems to be a specific logic bug with unknown reason.
(seems to have also happened to some people with big brand plugins like native instruments)
The solution that seems to work for most people (including myself) is deleting (if they exist, doesn't need to be all of them):
user/Library/Preferences/com.apple.audio.AUHpostingService.x86-64.plist
user/Library/Preferences/com.apple.audio.InfoHelper
user/Library/Caches/AudioUnitCache
user/Library/Caches/com.apple.audio.AUHostingService.x86-64
user/Library/Caches/com.apple.audio.InfoHelper