Auto rigging doesnt give you desired results , it is just a start . even maya heat mapping which works like magic , still needs some tweaks after . make sure that your rig is correct by applying an animation to your character and see how if works , notice the bending areas like elbows and such .
If your character doesnt have any facial animations , then facial rig is very easy , you probably just need to skin the eyes to the eyes bone . but if your character indeed has facial animations , it needs an exp rig artist to pull a good rig out of the face.