Hi,
Thank you for the data. We received it and analyzed it. As you said in the email, there is no request from PayPal logged on your access log with the notification URLs even though PayPal says that it attempted several times to trigger them.
So what I would say based on that is that the paypal notifications are blocked by a firewall on your website or server network before reaching your web server.
However, just to make sure here is the last build of the paypal plugin which contains all the fixes we added to it.
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And here is the PayPal plugin from the 2.1.3, before we changed the whole shipping/payment methods system.
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Please try each one and check if the transactions are confirmed or not with one or another.