In BC, if you have Generated the EFT file, you can set the payment journal back to re-generate the EFT file again. Use the Config Package feature, if you are familiar with creating and using Config Packages.
Create a config package for the general journal line table (81).
Set a filter for the Journal Template Name and Journal Template Batch.
Export to excel.
Change the Check Printed to False
Change the Check Export to False
Change the Check Transmitted to False.
Re-import the Config package.