It's one of those "seems like such a good idea" things we probably just should have dropped until we had a better solution.

The idea is that the ghostnote app visually stays out of the way by going semi-transparent when your mouse isn't over it.

So I am guess it's just so low on transparency that you can't see it :)

Got to Preferences and turn it off then you should be able to see the window.

But yeah not the most useful feature for now.