After fiddling with it a bit more, I did get all 3 to work properly (GPU in slot 1 @ 16X, SAS Controller detected and working in slot 2, and discreet sound in slot 3...)
Here are the exact steps I did to resolve (not sure which fixed or why:
1. Powered off PC, removed ac.
2. removed SAS controller from slot 1.
3. removed gpu from slot 2.
4. put gpu in slot 1.
5. powered up pc into bios.
6. disabled on board sound.
7. in an attempt to disable other un-necessary items thinking it might be irq conflicts, also disabled realtek nic.
8. Powered off PC, removed ac.
9 Put SAS controller in slot 2.
10 Powered on PC.
11. sas controller detected and Raid array's detected.
12. uninstalled onboard sound drivers and windows store apps.
13. Powered off PC, removed AC.
14. put discreet sound card in slot 3.
15. powered on pc.
16. installed discreet sound drivers and apps.
17 All working as I would have hoped.