For Fluttershy, school has always been tough. During flight school, she was a target for the bullies. Sometimes, she would get it real bad, and couldn't do anything but cry. But, luckily for her, she always had her best friend there for her.
Now in High-School, Fluttershy is now officially dating Rainbow Dash (after having finally gotten the bravery to do so). The only other people who know about their relationship is their friends. Rainbow Dash understands how hard it'll be for Shy if everyone finds out their 'secret'. Things may be harder for Fluttershy than Dash realizes though, especially when a stallion begins to develop feelings for the shy mare. But, she's unsure of how to break the news to him. If everyone finds out, the two of them, especially Shy, may never have the guts to face anyone ever again.....
Loosely based on the events of Ponies In Love (up to when they get together in Chapter 13 - any chapters beyond this are not canon to this story) - http://www.fimfiction.net/story/118913/ponies-in-love - By The_Queen_Baby. It's recommended that you read this first.
(Teen rating for mild language, some suggestive thoughts and one scene of violence with very minor blood, cuts & bruises)