It turns out that the default Mod Security rules in Cpanel, created by Jolt servers, are causing the issue. This conflicts with the Pro theme causing a 403 error and prevents bots from crawling the site. I believe this is the case with all Pro themes being used on jolt shared servers as it happened on another server account that was created on the same server.
If anyone else is having this issue, go to Mod Security in Cpanel and turn off the mod security rules for your domain. Hopefully this will help people with the same problem in the future.