I don't know if this is still relevant. Just in case:
This line is in your plovr output:
You should change it to:
That will insert the div at the end of the body.
You could do this by hand or using Fiddler (I believe your Fiddler addon would be handy for this).
If you want a more general solution, you can make the change in the plovr source and recompile the .jar . The code you need to change is in the file:
Give me call if you need a hand.