Zoho Invoice has plans to include auto-billing feature where you will be able to charge your customer's credit card automatically. However, we do not have any plans to further integrate with Stripe in order to be able to generate invoices in Zoho Invoice for recurring billing done in Stripe. Sorry about disappointing you on this front.
At the moment, we are working on a new version of Zoho Books. There has been several new features and several enhancements done already. There is more lined up. This is keeping us busy and so we will not be able to take up Auto-billing at the moment. We do have plans to make this available in the times to come. We will update this space on any updates on this.
I see over a year has past when the first question was asked about subscription billing... still no feature in Zoho invoice.
To all the users who also added interest in this post, consider switching to FreshBooks. I did and am very happy. Best part is they offer this feature along with auto charge on the client's credit card. They have quite a few more features than Zoho and it worth the $5 more a month.
Tired of waiting on promises--Just my two cents.
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