What's the best way to invoice a customer when there are multiple line items that ship and invoice on different dates?

Some of my orders have line items that are stock and ship/invoice right away net 30. The items that have leadtimes ship/invoice at later date. An accepted estimate that is an order seems to only be able to have one inv associated with it in QB Online. How are others accommodating this? I can't be the only one having this problem. It's even more confusing when one line item has some ship from stock and leadtimes on others to invoice later. 

I do work arounds, but it is not efficient. I send first invoice and have the qty of line item shipped while zeroing out qty's of not shipped and send INV example INV 1489 to send to customer. Then when another line item ships I'll have that qty in there, zero out the other non-shipped/previously shipped and update the INV number to example INV 1289-2 (-2 being second invoice for order) and set new ship and due dates. I will continue to do this until order is complete with ex: -3, -4, -5 etc. This causes me to lose track of previous inv on time payment tracking and is cumbersome keeping track of what has invoice and what has not.