Story #?? Chapter #?? Route #1: This is the first route of the indicated chapter and story
Story #?? Chapter #?? Route #2: This is the second route of the indicated chapter and story. Note that it is also the first chapter of Route #2.
Story #?? Route #2 Chapter #2 : This indicates that it is the second chapter of the Route #2, whose first chapter is the chapter titled 'Story # Chapter # Route #2'.