Not sure if this related to 2.0.16, but after update from 2.0.12f to 2.0.16 I have these problems :
User in checkout see shipping cost, but in the order e-mail that he gets amount is without shipping. Only items price. When I tired to delete test orders, I got this error messages :
"vmError: Seems the used shipmentmethod got deleted
vmError: TableOrders delete Order shipmentTable = #__virtuemart_shipment_plg_ `virtuemart_order_id` = 7404 dbErrorMsg
vmError: VirtueMartModelOrders::remove 7404 "
No changes in shipping method was made.
I am using OPC (one page checkout), but before this update everything worked fine.