Well, my awesome bookkeeper solved the problem for us.
When I set up the sub-customer accounts I did not check "Bill parent customer" because I actually send the bill out to each sub customer. The sub-customers approve the charges and let's the parent customer know that they should pay the invoices.
I had to have "Bill parent customer" checked on the sub-customer account for the invoices to show up in the Parent account. Hope this helps someone.
