This would have worked better if you did it visual novel style. Scrolling blocks of text in a flash game = bad. Said style would also put the players in the role of the protagonist more effectively. Though you would have to change it to first person style, rather than third person, this makes more sense given that you are giving the player the choices, rather than the protagonist.
It's also really quite short, despite your complaints about the time it took to write.
Now being able to go back and make another choice if you get a bad ending is a good feature though. Most of these make you go through the entire thing again.
Your music selection is decent too, mindful of what would be appropriate for the events.