I\'m currently implementing iOS9 universal links for a client.
After following apple doc and some good tutorials, I succeeded to make it working almost on the first
Okay.
St.derrick answer is very interresting, but one of his comment is even more:
As I suspected, by tapping on the top right corner of the navigation bar "mysite.com", iOS stops opening the app when you visit that URL.
To restore the initial behavior, iOS adds a header (initially hidden) on the webpage (mysite.com), with the "open app" option.
Unfortunately, I didn't find any official documentation about this behavior, which can literally drive us crazy.