Actually I figured it out. You can run two.
http://forum.utorrent.com/viewtopic.php?pid=56393
Also, my reason for running two is that i sometimes share the seedbox for a certain deal and UTorrent shows the total on the bottom (the total downloaded/upload) and it is very easy to see how much they have downloaded/uploaded to make sure I am not in the wrong in caculations. I made the 2nd UT for me so I dont have to worry taking out my uploading/downloading out of the total. If anyone else has an easier way to do this then by all means, let me know.
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