Solution : https://service.sap.com/sap/support/notes/216234 (SAP Service marketplace login required)
Key words : 
result-oriented order bom, additional key words cu5x, program errora prerequisite, transaction cu5x, system deletes, root instance, assignment screen, characteristic values, characteristic, transaction
Related Notes : 
       
| 131635 | CU51 Charcteristic value assignmt for root instance |