Can't issue SSL sertificate

You have an A record for IPv4 but you also have an AAAA record for IPv6. These two point to different servers. Your A record points to nginx server but AAAA points to an openresty server.

Let's Encrypt servers prefer the AAAA address. Since that gives a faulty 404 Not Found response your request fails.

You need to correct the AAAA record or remove it if you don't have IPv6 available

nslookup opravacomp.sk
A    Address: 23.88.117.56
AAAA Address: 2a00:4b40:aaaa:2007::5
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