Sales channel - 3rd party payment providers

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Hello everyone,

My team began building a sales channel here on Shopify and amount of information and examples provided on was pretty good so far. However there are a couple of points we need to clear up before we proceed with further app development and submitting process.

Our question relies on the ability to process transactions on our third-party platform utilizing our own Stripe account and import the transaction details into Shopify Individual Merchant Stores efficiently. Would this work best through the Checkout API vs. Order API if we are likely to sell from multiple merchants before checkout? Also what are the financial ramifications for either scenario?

Thanks in advance!