Hello everyone!
Just updating this thread. Our CF plugins have been deprecated and are no longer maintained. If you are looking to migrate your CF funnel to Funnelish, our support team is happy to help you through the process.
Also, if you want to sync orders from Funnelish to Shopify, you can check this How to Connect Shopify to Funnelish and Set Up Product Automation
If you do all the automations correctly, all orders will sync regardless of the payment method used by the customer 
For any questions, feel free to comment below.