Tor was not designed to be used with such massive traffic clients as uTorrent. Torrents produce great overhead to the TOR network, open direct UDP connections ignoring proxy rules, share your IP with torrent trackers and so on.
So in general they should be torified at Ethernet level, not at TCP like TOR does. A good alternative is to use i2p network
- it uses its own domain .i2p and has own trackers, such as