If you are utilizing Webgility Desktop to manage multiple stores and download orders, Amazon reserves the right to flag your usage and prevent data from being accessed or even shut down your stores.
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According to Amazon's General Guidelines, this falls under the Misuse of the Amazon selling platform guideline.
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If your Amazon stores are affected, you will need to contact Amazon Seller Support and file a Letter of Exception.

This needs to be done for every Amazon Seller Central Store you are managing and for each additional store you add to Webgility Desktop.