I don't think that Daisuke Amaya would want us remaking Cave Story anyway, it could potentially hurt the Wiiware sales (and thus the person that created CS, too). Also, after the Wiiware version was announced, he requested anyone making ports of the game to cease operations out of fear that it would breach his contract if they were allowed to continue on.
Out of respect, I don't think anyone should try re-creating the game engine for at least another year or two, unless they have received a reply from Pixel himself and can prove that said reply was not faked.