Cross Charge Rejection - error in applying burden schedule

All,

I have about 10 transactions stuck with this error. I followed the following steps

1)Expenditure Type INTERCOMPANY - Burden Transaction Type added

2)Burden Cost Codes - INTERCOMPANY added

3)Update the Cost Bases table

4)Burden Structure - new version to be created and a INTERCOMPANY line to be added

5)A new version of the IC_MARKUP_BURDEN_SCHEDULE to be created

6) Compile

7) Ran request set and was able to process invoice

Issue : It messed up other transactions as well, in this case of the interco transactions, the credit memo used the original exchange rate, but the new invoice used the current exchange rate.