Hi!
I upgradet my cocos projekt with cocos tools - upgrade cocos project. The update process worked and everything is fine. Now I would like to add native code support. This isn’t working because it looks in a wrong directory to find the cocos2dx_files.json.
The new cocos2d-x is located in
C:\Cocos\frameworks\cocos2d-x-3.3
The old is in
C:\Cocos\frameworks\cocos2d-x
Cocos Code IDE looks in
C:\Cocos\frameworks\cocos2d-x\.\templates\cocos2dx_files.json
But thats wrong.
Pls fix in next version 
As a workaround you can rename cocos2d-x to cocos2d-x-old and cocos2d-x-3.3 to cocos2d-x.