Hmmm.
You really should not be doing this:
/etc/e-smith/templates-custom/etc/sudoers/10Root
Unless you absolutely need to, and know exactly what you are doing, don't do that.
Also you should not be installing ANYTHING from smetest on a production machine. That is an easy way to irretrievably bork yourserver. Use a test machine for testing.
And then I can see these:
/etc/e-smith/templates-custom/usr/bin/hook-script.sh/05deploy_cert_mailpile
/etc/e-smith/templates-custom/etc/dehydrated/domains.txt/15mailpile
And I cannot see the smeserver-letsencrypt contrib, so you have manually installed letsencrypt/dehydrated but we have no idea how you have configured it. It doesn't look like you have the httpd templates that you need.
Please go back, undo what you have done and install he contrib which should make installation a lot easier for you, we know what has been installed, and is easier for us to diagnose.
https://wiki.koozali.org/Letsencrypt#Contrib_Installation_of_Dehydrated