Selfhosted
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I see that you want to use the cert for intranet apps btw.
What I did was get two LE wildcard certs, one for *.my.dom and one for *.local.my.dom. Both of them can be obtained and renewed with the API approach without any further care to what they actually point at.
Also, by using wildcards, you don't give away any of your subdomains. LE requests are public so if you get a cert for a specific subdomain everybody will know about it. local.my.dom will be known but since that's only used on my LAN it doesn't matter.
Then what I do for externally exposed apps is to point my.dom to an IP (A record) and either make a wildcard CNAME for everything *.my.dom to my.dom, or explicit subdomain CNAME's as needed, also to my.dom.
This way you only have one record to update for the IP and everything else will pick it up. I prefer the second approach and I use a cryptic subdomain name (ie. don't use jellyfin.my.dom) so I cut down on brute force guessing.
The IP points at my router, which forwards 443 (or a different port of you prefer) to a reverse proxy that uses the *.my.dom LE cert. If whatever tries to access the port doesn't provide the correct full domain name they get an error from the proxy.
For the internal stuff I use dnsmasq which has a feature that will override all DNS resolves for anything ending with .local.my.dom to the LAN IP of the reverse proxy. Which uses the *.local.my.dom LE cert for these ones but otherwise works the same.