Josh,

I will review the Warehouse Flows related to Manufacturing since that is what you are talking about...
1. User Creates a Released Production Order
2. In Released Production Order generate the Inventory Pick or Warehouse Pick (Advanced)
3. Pick and Post the Inventory Pick or Register the Warehouse Pick (Advanced)
4. Consume the Picked Components in Consumption Journal or Production Journal
5. Produced Finished Product on Output Journal or Production Journal
6. Now you have the Output Finished Good and need to perform Inventory Put-away or Warehouse Movement. On Released Production Order generate these documents
You are done. If on the Location you have Require Pick and Put-away and you have your Bins setup for Picking and then the Production Inbound and Outbound Bins will be needed.
Hope I answered your questions.
Thanks,
Steve