I get to do chores? Hooray!
Here are my thoughts in no particular order.
-Well, you're definitely maxing out the cute factor here.
-The style change after the battle was a little odd, but also adorable.
-When I went to battle Twilight for a second time under the Battle option, her attacks literally did NO damage. I'm not sure if this is because I leveled up or not.
-I would recommend some sort of result screen at the end of every battle to show you how much experience and money you earned, how much money you now have, how much experience you need to get to the next level, etc.
-Give a thought to trying to get some original battle music, attack animations, opening animations, pictures and fonts - really make it your own.
-I'd suggest sticking with one graphic style and developing it.
-The battle system might need a little refinement. There's nothing particularly wrong with it - you might just want to do some testing and tweaking of the mechanics, maybe get some more strategy and interactivity involved, make the AI a bit smarter, and so on. On the other hand, good job having the system catch and alert us to stat-changing abilities no longer doing anything.
-The ability to learn new attacks would be good.
-As it stands now, you could probably beat Fluttershy at only level 3, and I had to be level 9 to beat Luna.
-In the text that appears after using Stare, there's no space between the words "been" and "reduced." -You should have some roll-over text on each of the moves describing what they do.
-During the story scenes, some of the text seems to be missing.
-Try making the menu system a little prettier.
-It'd be cool if we could play with Dash in the "waiting screen."
-Once your experience exceeds 10,000, the last zero gets partially cut off.
-When I started my battle with Luna, I only had 12 AP instead of the full 18, and she attacked every time after I attacked, and then when I Defended, she didn't attack. I don't know if those are just her peculiarities or a programming problem.
-I think the picture of Twilight and Rainbow Dash sitting/laying side-by-side *may* be by a guy on deviantArt with the username "johnjoseco". It looks like his style.
-Leveling up gets kind of dull after you reach level six or seven. I'd suggest more kinds of battles, or maybe finding a way to make battles more interactive - like action events or something. Not the ones where you die if you mess up, but like the ones in the Paper Mario games - when you enter commands correctly with the right timing, the effectiveness of the attack increases. Maybe some voice overs during attacks...?
-I liked the credits song you picked.
-And of course, the story needs to be longer and all that other stuff you're probably going to take care of anyway.
So far it's looking really good. I'm interested in seeing how this turns out.