No, the D2L course instructor is not copied on the emails triggered by Intelligent Agents by default.
Instructors can receive copies of the emails triggered by D2L Intelligent Agents by including their email address in the Cc or Bcc fields during the Intelligent Agent setup process. The options for designating email addresses to be copied (Cc) or blind copied (Bcc) are found within the Actions area of the Intelligent Agent setup menu: