I am having the same problem, except I am trying to add something to my side bar. It is a java script counter and when I try adding it to the bottom of the Meta catagory my menu drops to the bottom. It stays left but is below the post box. I am not sure why it won’t let me stick the code in?
I was able to find under advanced button in Header and Image color the button “select default colors” Uploaded my header again and all is well.
