Good morning, maybe someone with more experience with fault domains can chime in, but it seems like there is some confusion with them. In your case, I don't think you would setup any fault domains. As an example, a fault domain would be used if you had 4 hosts in 3 racks. Rack 1 with 2 hosts and then 2 and 3 with 1 host each. You would setup 3 fault domains, that way you could lose any 1 rack and still have all VMs accessible. vSAN would make sure the witness and the two copies of the data are all in separate domains.
Hope that helps. Thank you, Zach.