While on the surface you're correct, if properly implemented, this technology should still be usable with NFC, as it doesn't rely on the security of the NFC link to be secure.
For one, an NFC link can only be exploited through sniffing in the immediate physical vicinity of the accessing device (and statistically-speaking, few attackers are financially capable of being within 10m of their victim). For another, the real security of authentication comes from the crypto chip (think embedded smartcard or TPM-type module).
Contrast this to a USB device, where USB over TCP becomes a true security risk. It's possible for an attacker to mount a USB device over a WAN link in a manner indistinguishable from a local device, thereby co-opting the credential store. (Though of course this is supposing that the NFC connector is not itself USB-connected...)
Now the question of how to authenticate securely to the NFC device itself is another question entirely. But that's one for another thread.