I'm running M7F and a Logitech Z906 5.1 setup conected as recommended via analong mini-jacks.
Even before I finally found the Supreme FX control suite, I was getting sound out of all 5 speakers with streamed music. I wasn't very impressed with the sound quality, however.
I finally discovered the audio suite after having my build up and running for 3 weeks or so LOL! Changed the Supreme FX setting from default 2.1 to 5.1, and played around with some settings in the Sonic Studio music preset. Now I'm MUCH more satisfied with the audio! Supreme FX is worth every bit of the hype, IMO.
I too used the HD Audio connection, however I don't use a headset so can't comment on your issues. The Z906 control box has headset plugs on it, so I'd likely use that input anyway.
I have yet to try different media types besides streaming music, I hope they all perform as well as I'm hearing now!
What I CAN say is that I was getting 5.1 sound from the couple games i played, even before selecting the 5.1 option in Supreme FX. I did make sure to select 5.1 audio in the individual games, however.
*edit* I have yet to play with Fan Expert, so can't answer those questions either 😕 I want to redo my thermal paste application, and use all 6 case fan headers instead of 3 splitters. After i get that little bit of tweaking done, I'll explore custom fan profiles in BIOS and AI Suite 3.