There are no drives on the onboard SATA and the LSI is also not detecting anything, check to see if the drives are spinning up and if they are being detected in the board/LSI BIOS, if they are not detected there they also won't be detected by Unraid.
If there's no restore download the v6.9.2 zip and extract all bz* files overwriting existing ones, you can also try v6.10.3 if you haven't yet since at least it's much newer.
Disk3 was already disabled and looks like disk1 is also failing, so some data loss is possible, start by running an extended SMART test on disk1 and disk3 then reboot and post new diags after array start.
Same thing, looks like the newer driver is looking at that, previous one wasn't, not sure if it's a driver problem or NIC problem, NIC would be main my guess, but in any case not much that can be done on the Unraid side.