I know this is an old thread, but I have always done what the others have suggested, and used the Axe as the audio interface for recording into Logic X via usb. I made sure I had a good cable. At first I only had a FM3 and I was using Reaper on a macbook pro... it gets the job done but it is very difficult to do certain things that Logic makes easy, like just recording beats and bass lines to practice along to.
I found this early on ...
https://forum.fractalaudio.com/threads/tutorial-how-to-setup-reamping-with-reaper-on-a-mac.39503/
and really just this part showed me the concept of reamping with the outputs and usb setting:
WET track - Output - Should be going to your main speaker output - Output 1/2 for me. Input - the main inputs from the Axe - 1/2 for me.
DI Track - Output - Should be going back to the AxeII; Output 3/4 for me. Input - The alternative outputs from the Axe - 3/4 for me.
REAMP Track - Output - Should be going to your main speaker output - Output 1/2 for me. Input - the main inputs from the Axe - 1/2 for me.
Then this for reamping once you have a track recorded:
On the AxeII, go the I/O menu, and change the input 1 source from analog to USB. Now mute the WET track, and arm and input monitor the REAMP track. Hit play, and you should hear your riff being played back; but now if you make changes with the AxeII knobs, your recorded sound is altered... tweak it until it sounds good, then hit record to save your riff played with your new sweet tone! SUCCESS!
I have the Scheps Parallel particles plugin (great EQ for individual instruments and overall track) and Aphex Vintage Exciter which is fun to play with. It makes the track just jump out more on multitracked songs with vocals, bass, drums, maybe keys. I got it because I read it is a plugin for what the Beatles used. I also recently got the FAS reverb, hell it is hard to make a bad sounding recording. I don't know what I'm doing so sometimes I research mixing techniques, but usually it's just levels and eq and it sounds freaking awesome. I love Fractal! I should have kept my FM3 but I sold it to help finance an Axe-FX III.
I always got awesome results and I just mostly record guitar covers with the tracks separated using demucs, so I can take out the guitar and record myself playing the guitar part(s).
I am thinking about checking out these amp plugins:
https://www.stltones.com/products/stl-ignite-emissary-plug-in-bundle but I am not expecting it to be like the Fractal. It's like a better Amplitube for $10/month you use any amp, effect, pedal you want. There are some interesting cabinet plugins that Dave Friedman is involved with.
DynIR Virtual Cabinets/Torpedo Hardware Setup
But honestly I was using the same pedalboard and 2 Mesa amps for 15 years. I am totally behind and have read up on this stuff and learn how to use it. I think just doing some tweaking with Fractal Axe-FX III is what I will end up doing, but mostly first and foremost play! Play the guitar and tweak as necessary! Working full-time salaried position with 60-70 hours/week makes it hard sometimes to play, but I keep at it whenever I have some time. It's a great time for guitar as technology has really provided killer tone to everyone. Thanks FAS!