The best app I have ever used for linking notes is an old Linux app called tomboy. I used the heck out of it and wish there was something that was close in terms of linking..... with all the Evernote/OneNote additional capabilities. I will look at Crusoe as linking as been a thorn in my craw.... so to speak, for some time.
I just created a new feature request that included some of these ideas. I now see your suggestion and will delete my idea. I love the highlight some text, right click and search for a note to link to method. I would also like to see an Add New Note option that would create the new note and notelink. That would seem to solve all my problems.