FF747 Tax amount must not be greater than the tax base

We have sample orders where the order amount is calculated and then discounted fully.  However, our freight goes to our tax software separately due to different taxability rules.  Therefore, the original tax amount (pre-discount) is sent and we end up with FF 747: The tax amount must not be greater than the tax base.
The business wants to track this freight amount.  How do we change the message from error to warning or does anyone have a work around so we can invoice these customers?
Thanks,
Michelle

Hello ,
I am facing the same issue. Could you please let me know how you resolved it ?
Thanks.

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