Shit, dude, dialing these things in is a month long journey...
For cleans, turn channel volume all the way up, the presence between 1/3-1/2, bass around 10:00, mids off, treble around noon. Start turning up the gain until you can live with the sound. This will be the basis for the volume of all your other channels. You will have to compromise some, since you cannot expect this to be a Fender Twin. There will be a little bit of grit on the bridge humbucker.
For leads, use channel 2/modern, as it has the calmer presence knob. Put the presence around 11:00, treble 1:00, mid 11:00, bass 10:30, gain 1:00. Have a tube screamer handy for a clean boost. That should get you a singing lead that will double as a modern rhythm tone. Use the solo boost function to good effect here.
I'll wait for Drew to stop in with the Satch rhythm.