My two favorites are Hideo Kojima of MGS series and Yasumi Matsuno of the Ogre Battle/Tactics Ogre series. Yasumi Matsuno also made Final Fantasy Tactics, FFXII, and Vagrant Story. It's amazing how these individuals have infact created entire genres by themselves, and characterized their own series brilliantly with awesome stories and gameplay. These two are different from all the other game developers out there, they are brilliant.
Who do you like?