*Spoiler warning*
I never would have beat it without the walk through, but the story was kinda fun. I think the main problem is that the puzzles revolved around doing things with new controls that you don't explain to the player. I'd never squashed cubes by jumping on them before, so it's no good to assume I'll know to do it suddenly. Putting something next to a sign to change it is kind of interesting, but you don't even hint about that anywhere, so the only way I'd figure it out would be to just do random things. Then, destroying numbers to make trees was rather odd, lol.
Now, I get that it's supposed to be done in a few days, but honestly, why not submit a more polished version to Newgrounds? You can take what you did here and test it out a bit on people and make something really cool.