Currently, there is an  interfund table that is used by Payroll and Accounts Payable modules for balancing inter fund entries.  This works well in these modules.  GL does not follow an inter fund table but rather a simple setting on the InterFund tab of the Fund record in GL Configuration.

This configuration is quite limited and causes the user of the GL entry to have to calculate the inter fund balancing entries manually before they can validate.  Consider not just 1 or 2 fund s involved in the GL entry but 3 or 4.

This was handled in support ticket :

Blackbaud Case 13778935