I have successfully setup a site with two subdomains, using the standalone option
./letsencrypt-auto certonly -a standalone -d example.com -d www.example.com -d sub1.example.com
Everything is working great so far, and the combined certificate is in the live/example.com folder. What is the best approach now if I would like to add another subsite, i.e. sub2.example.com? Is it better to run the full command again, just adding the site?
The big thing I notice is that it will try to create the certs again or prompt you asking what to do about the existing certs. You could pass the --keep or --renew-by-default flags to keep existing non-expired certs or replace them, accordingly. So you could put them all in the same line with --keep and it won’t replace the certs. I think that is a better approach but there might be better reasons from others on why not.
So what would happen if I decided I no longer needed one of the domains/subs and I took it out of the renewal cron, would it simply just remove it and carry on renewing the rest?