This game is one of mixed impressions. It looks like a lot of hard work has gone into it, and it would appear that much of that work has paid off. The custom tiles go well with the tilesets you used, the custom menus, trainer card, and maps all look excellent, and the game looks good.
My only real quibble is with the new Pokemon. They look like a combination of mixed sprites and custom additions, and they don't look as good as I feel they could. This is not meant as an insult, instead, it is merely meant to say that I think you could do better, if you continued learning how to sprite, and reworked them.
Overall, this thread has impressed me. It was put together in a professional manner, and it makes me want to try the game. Good work, and I hope you can turn out a finished product that is as fun as the thread makes it look.