When you have located the cause of the difference you need to fix it. Depending on the type of error the solution can be different. Here are some example´s of errors and how to fix them:
We haven't corrected all transactions (both in settle- and trade dimension) that belong to a certain business event or order. Solution: Find the transactions and correct them. It is now possible to search on an amount in the transaction list, which could be helpful here.
We have used "Create Transaction" and forgot to make both settle and trade transactions. Solution: use Create Transaction, select transaction type and make correct transactions.
We have used "Create Transaction and made transactions in the wrong direction on Custody. Solution: Correct transactions and use create transaction again.
Iterate step 2 to 4 for each asset that has a difference.