What I've been seeing alot of lately is one GTR with many amps and mic positions. The guitarist will go out of his gtr through a mult then out to any number of amps. The amps are then mic'ed every possible way (close, off axis, M/S, distant, room) From here all of the amps are bussed to one or two tracks.
To achive this at home off a DAW, I think you would just play the GTR directly into the computer clean. Once the track is on "tape" , patch the output of your DAW to the input of your amp. Mic up the amp the way you normally would and hit record. Next, repeat the process using the clean sound over and over with diferent amps and micing techniques. Once you have all of these "GTR AMP" tracks recorded you will need to adjust them all backwards to compensate for the latency created by this process. You have now created essentially one gtr track from a boatload of amps. You don't have to worry about how tightly you played against the last take since they are all the same.
I hope this works for you,
jamie