The app need to the shop admin set the products active in the App, so the app will start working with the product.
The question is, can i leave the Shop create one Recurring Charge for each product with the custom capped amount for that product?
Because i think It will be better for him to control the billings.
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This is an accepted solution.
You can only create a single recurring charge per app, per shop. To get around this, you may need to get into setting up some sort of complex usage-based charge that you would need to manage billing internally and push changes to Shopify's billing system when the usage amount needs to be updated.