QuickBooks added location tracking to QuickBooks Enterprise Solutions in Version 11 and then added serial number tracking (or if you choose lot number tracking) in version 12.
Method Warehouse offered additional features as well, but these were the primary feature gaps in QB that are now filled by Intuit.
You have to purchase Enterprise Solutions and then you have to purchase QBES Advanced Inventory for $600 per year, but we just implemented these features of a client with great success.
Now we're working to get them on Method for everything else (e.g. CRM, Case Management, Quoting, etc.)