In my humble opinion NPIV is more relevant to 'standard' VMotion (ESX host to host) than Storage VMotion (storage to storage).
In former scenario NPIV helps to preserve WWN settings when migrating a VM, because physical HBA WWN on target host will be different from source. From the doc you are refering to: "This will ensure that the NPIV connection is maintained when the VMotion takes place. Otherwise the VM will default back to the physical HBA WWN and will not be using NPIV."
In latter scenario HBA WWN doesn't change as the VM remains on the same host.
Regards,
Radek