Do you still have Service Center? I have noticed that some things need to be activated through that. I don't know why, I just go with it ;)
But your other issue is weird, to say the least. Just to get the spoon in, does this happen with, say, the trumpet and piano from the Kontakt Library? And other 3rd party libraries like Intimate Strings Lite? (
http://www.embertone.com/freebies/intstrings-lite.php)
Makes me wonder, what kind of MIDI controller are you using?
It sounds like it could be a good idea to completely remove Kontakt and every trace of it, and reinstall it. However, could there be something in the main settings that glues it to some weird scales by default?