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How do you process a backorder for an item in this situation:

I ordered twelve of the same item.  Four of them are on backorder.  If I go to shortages from the sales order screen, it makes me put them all on back order.  Then I have go to the other 8 and mark them as NOT on backorder. Then remove those 8 from the next campaign since it automatically starts a new invoice for a backordered item.

Or else I have to go to four invoices, mark them manually as a backorder.  But then those will not automatically add a new invoice to the future campaign when the item is supposed to be in. So I would have to go create new invoices for those.

It works great if the backordered item was only ordered once in that campaign, or if say 5 were ordered and all 5 were on backorder. 

Did I explain that ok...and if so, do you have a suggestion on how to do this smoothly?

It also gets kinda messy since I don't always like it have the price removed when there is a backorder. For instance, I have a gal that ordered about 20 items.  Only one of them was on backorder and it only cost .99 cents.  She only orders about every couple months.  I would rather have her pay for it now, and just drop it off when it comes, rather than have it taken off her bill, then submit another invoice for the 99 cents. Plus she would rather just pay the whole bill with a check at once. 
So in this situation I always have to manually create a new invoice for the future campaign and make the price zero so I don't forget there is a backorder out there due to a customer.  And not use the shortage feature. 
Backorders are just a pain all together....wish there weren't so many, but that is certainly not in your control.

Sounds great!  I'm looking forward to that addition.  (Luckily I haven't had that problem come up yet, but thought it might someday!