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No resolver defined to resolve r3.o.lencr.org while requesting certificate status, responder: r3.o.lencr.org, certificate
When do you see that error? Which instance? You have root access, your webserver doesn't work, there is a proxy.
The proxy Letsencrypt certificate is valid, without the "Must staple" extension. May be that proxy hasn't a correct dns resolver (but that's speculative).
Yes I have root access to my server is my VPS. I run on it BTCPay Server which is come with letsencrypt-nginx-proxy-companion:1.12.2 . this module create the cert.
This is due to nginx trying to get OCSP responses, but is unable to because there is no DNS resolver configured in nginx. Please read the following resolver directive.