I recently used the automatic update tool in Joomla to upgrade VirtueMart from 3.0.9 to 3.0.16. It seems there might have been some kind of failure during that upgrade since now, when I go to Manage Extensions, all VM extensions show 3.0.16 EXCEPT for the plain VirtueMart extension. Also, when I go into the configuration, it still reads 3.0.9 even though almost all of my extensions are 3.0.16. I'm also seeing some functionality not working throughout the store, and I'm thinking this could be part of it? Thanks!
sounds like you only upgraded the VM AIO (the extensions)
just install by the normal joomla installer -> http://dev.virtuemart.net/attachments/download/998/com_virtuemart.3.0.16.zip
See http://forum.virtuemart.net/index.php?topic=123808