You should find a good known sata drive and test your motherboard with it.
If this drive is recognized, that means there is a problem with your other drives. If this drive is not recognized, that means there happened to be a problem with your motherboard. It may just be a coincidence that you set BIOS defaults and an unrelated problem happened.
Sata setting in BIOS should not matter. Sata set to either IDE or AHCI or whatever should not matter. BIOS should recognize the drive. Settings are important in Windows.