Really nice to see a larger scope RPG on Newgrounds like this. The art is really nice, and the music fits the atmosphere really well. Lots of items and NPCs to talk to too, and subquests are a nice touch. While the programming works fine and there don't appear to be any bugs, unfortunately the gameplay is just a bit dull to me.
The random battles really slow down the pace, and don't seem to consist of much more than clicking attack until stuff dies (The skills don't seem to be particularly useful). Maybe some sort of auto-battle function that just automatically attacks whatever is at the top would speed things along a bit. I know a good RPG is very hard to make, so it might just be the nature of the project. Congrats on what you were able to accomplish with such a small team!
As a side note, I sometimes found it difficult to get through narrow passages (such as the bridge in the first town) and doors. Maybe increase the walkable area by a bit?