Hello Tj! I'd be happy to provide some guidance here! First, do your hostnames show as having valid certificates already? They aren't showing any failure messages? Onto your questions:
Are the certs/pfx files meant to appear under the defined folder (d:\SmarterMail\Certificates\)? <-- Yes, once successfully validated and generated you'll find a PFX file matching that hostname in the certificates directory.
Where is this generation/renewal action logged <-- I don't see a cert specific log under troubleshooting)? (These are found in the Administrative log file and you can narrow down the results by searching for ACME.
Is there a way to force a regeneration of the cert(s)? <-- Sort of, you can retry but this simply queues it for revalidation as we have a built-in rate limit to prevent you being throttled or blocked by the ACME/Lets Encrypt services.
Also, it seems like you still need to set the port bindings manually like you always had to? <-- The bindings you set up in Settings>Bindings>Ports to use a specific PFX will serve as your fallback certificate if a better PFX isn't found matching the hostname clients are connecting on.
Kyle Kerst
System/Network Administrator
SmarterTools Inc.
(877) 357-6278
www.smartertools.com