In the above pic, the midi tracks are already muted since I recorded the synths to audio and rendered the softsynths, all to separate audio tracks. In cases where a synth provided a drum sound, these were recorded dry to individual tracks for each sound, mostly for the kick, snare and hat. Toms and cymbals were also recorded to their own stereo tracks (the kick, snare and hat were recorded mono). The entire drum tracks were then sent to an aux channel for submixing and compression.
Track 34 features the live guitar that I had a friend record. I flew in his wav and then cut it up so that I could adjust the timing. You could see that somewhere around measure 45 where I added V-vocal to the track to further adjust timing since my buddy was sometimes leading or lagging the beat - a sign that the metronome wasn't on when he recorded, and this was on the all important solo! Btw, this is a sequence of Toto's "I Won't Hold You Back" which I made for a local 'artist' some years back.