I agree, a big shake up is needed. I always thought that Bad Medicine would work well in the 2nd slot (like on the These Days Tour) after something pumping like Raise Your Hands. As for Bad Name, I can't really imagine it working well anywhere else in the set, having said that though i've never heard a boot where it wasn't part of the first 5 songs. I agree about Prayer, I think it would work really well in a short acoustic set with one or two lesser known songs e.g. Bells Of Freedom or Mystery Train or Misunderstood ect.

Also, I think that every set should have at least one song from each album (can't see this happening though).