It sounds like the hardware will just be running one VM. Built-in back up on Hyper-V Server 2016 all the way via the host, no issues there if you can use block-level storage for your backups. It's so much easier and faster to backup and restore the VM as a whole anyways... no VM agent needed. Also, you get the option of "production" checkpoints (snapshots) on 2016. That's definitely noteworthy.
What specific features are you talking about here? I have Hyper-V 2016 server up in a lab environment but have yet to actually test anything.
I mentioned two in there. Windows Server Backup, and "Production Checkpoints".
I was not sure if those were that actual names of the features. I will have to check into them.
Obviously Windows Server Backup used to be a specific thing in full installs of Windows Server. Likewise, Checkpoints are a standard thing, but I have not heard about Production checkpoints.