Please note that we have tested this functionality with VMware server, but we think it should work with VMware Fusion.
We would appreciate if you can make the following listed changes to your Windows VMware image:
Now, the Windows OS installed in VMware will start recognizing the YubiKey.
Also add a USB controller using the VMware Server Console. You can add the USB controller by selecting the Windows VMware machine's settings and clicking on Add button under the Hardware tag.
Whenever you insert the YubiKey in the physical server running the Windows Vmware image, using the VMware Server Console you need to click on VM --> Removable Devices and select the YubiKey. This will enumerate the YubiKey in the Windows OS running under VMware.
This way you can reprogram your YubiKey using the YubiKey configuration utility running in the Windows operating system under the VMware fusion.
You can download the YubiKey configuration utility and the user manual from the link below:
http://www.yubico.com/personalization-toolWe hope this helps!