Solution : https://service.sap.com/sap/support/notes/329927 (SAP Service marketplace login required)
Key words : 
additional key words va02, engineering change management, configurable item, program error, solution implement, correction removes, attached correction, correction, duplicated, prerequisites
Related Notes : 
       
| 418336 | Manually maintained components with configuration with set | 
| 365327 | Incorrect components in sales order for SET processing | 
| 334782 | Configuration - double sub-items II | 
| 139190 | Configuration & multiple usage of assemblies in SD |