Hi,
If you want to see things from the Windows guest side of things you can just push a scom agent on those virtual machines (and the same for unix/linux guests).
You may try below link:
http://www.systemcentercentral.com/free-enterprise-virtual-machine-discovery-management-pack-for-operations-manager-2007-r2-and-2012-scom-now-available/
Please check whether virtual machine discovery rule is enabled within the management pack, you can go through the management guide to get more details.
In addition, you may check operation manager event log to check is there any related messages.
Regards,
Yan Li
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