MSBs have their own BSA/AML reporting requirements, which is very similar to the banking standards. If your customer is filing the CTR on their end, the bank, as a intermediary, does not need to file another CTR. Why would you want to do their work and also create a duplicate workload? You should check with your customer if they have a reasonable AML program and procedures in place.
"Give thanks in all circumstances; for this is God's will for you in Christ Jesus." -Thessalonians 5:18