When obtaining a certificate for the server's hostname the following error is generated: "Error 400: Bad Request"

Symptoms

When running /usr/local/cpanel/bin/checkallsslcerts the following error is received:

Error 400: Bad Request
No cPanel user controls a local domain called “domain.com”.

Description 

The issue is noted when attempting to obtain an SSL certificate for the server's hostname. The request is unable to property route the HTTP DCV which prevents the certificate from being issued.

Workaround

Rebuilding and restarting Apache should allow for the certificate to be issued.