The first time you try to use Face ID for an app a system permission alert prompt is shown "Do you want to allow <app> to use Face ID" (like Photos, Contacts etc permissions). However, there appears to be no way to reset this.
I've tried deleting the app and re-installing, and even resetting Face ID on my phone. But once I re-install the app the Face ID permission is already enabled for the app in Settings -> Face ID, and when I attempt to use Face ID it works right away, without the permission prompt appearing.
Seems like a bug. To be clear, this is an app I'm running on my iPhone X via Xcode, not an App Store app (I don't know if that makes a difference, it shouldn't).