Guaranteed if I dual booted Linux on it the problem would magically disappear.

unfortunately not since its a hardware limitation
probably a cruft from the iPhone/iPad era since the first ARM desktop chips from Apple are basically beefed up phone chips which don’t need more than one external monitor

anyway it is pretty stupid to ship a laptop with that limitation in this century

you can just use any other OTP application on Linux like https://gitlab.gnome.org/World/Authenticator or https://apps.kde.org/keysmith/, they all follow the same protocol
you can export your keys in Aegis and import them in most applications