To help figure out what is what, the best way to provide comprehensive diagnostic information is to use the "Collect Support Information" command from the VMware Fusion (menu bar)> Help > Collect Support Information and then attach the .tgz file it created on your Desktop to a reply post.
Note: Use the "Use advanced editor" link in the upper right corner of the normal reply window to bring up the Advanced Editor where you'll be able to attach files via the Choose File button or Browse button (depending on the Browser) above the Post Message button!
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Just an FYI... It is a known fact that Time Machine is not 100% reliable backing up/restoring Virtual Machines under all circumstances/conditions. Also backing up Virtual Machines via Time Machine is disk/time intensive and wastes a tremendous amount of space for something that may be corrupt and worthless come time to restore it. At a minimum I would exclude Virtual Machines from Time Machine and with the Virtual Machines shutdown, not suspended, and VMware Fusion closed then manually copy the Virtual Machines Package(s) to an alternate location, preferably on to a different physical hard disk. Then keep the User Data that is stored within the Virtual Machine backed up off of the Virtual Machine on a regular basis so as to always have a current User Data Backup. If you have to restore a properly backed up Virtual Machine that is not as current at least you'll have a working Virtual Machine and current User Data to go forward with when you find out your Time Machine Backup of the Virtual Machine fails.
Also have a look at: Best Practices for virtual machine backup (programs and data) in VMware Fusion (1013628)