SuperMicro has replied that SM X11SPM board does indeed support all kinds of bifurcation for both of it's PCIe 3.0 x16 slots and it is mentioned in the manual. I discovered that if I do a Ctrl+F search in their manuals after they open, nothing gets found as the file is still loading. If I wait a while, the term bifurcation is finally found at page 86 under IO Configuration. To be exact, the board has following options:
IOU0 (II0 PCIe Br1)
This item configures the PCI-E port Bifuraction setting for a PCI-E port specified by the
user. The options are x4x4x4x4, x4x4x8, x8x4x4, x8x8, x16, and Auto.
IOU1 (II0 PCIe Br2)
This item configures the PCI-E port Bifuraction setting for a PCI-E port specified by the
user. The options are x4x4x4x4, x4x4x8, x8x4x4, x8x8, x16, and Auto.
Chapter 4: BIOS87
IOU2 (II0 PCIe Br3)
This item configures the PCI-E port Bifuraction setting for a PCI-E port specified by the
user. The options are x4x4x4x4, x4x4x8, x8x4x4, x8x8, x16, and Auto.
Somehow I think this must be configuring PCI lanes regardless of physical ports on the board, because I'm confused how could the PCI-E 3.0 x8 port be configured into anything mentioned above. Other than that, I've also thrown in SM's SATA DOM drive to serve as boot media and their miniSAS to SATA breakout cables.
Additionally, their support has stated that they didn't explicitly test the ASUS HYPER card, so they gave no guarantee. I'll see what happens when it gets here.