The major issue are the eye loops, in order to correctly deform they must loop around the eye where yours flow upwards into the forehead. This is how they should look http://blenderartists.org/forum/attachment.php?attachmentid=24418&d=1186035514
Yeah it looks like you have a lot of polys where you dont need them. Plus there are alot of loose objects that dont have to be. You really only need to split the mesh into skin and the rest, your texture maps will separate all the item. Like Popol shower you should have loops around the upper arm shoulder connection. Right…