Make sure you are in the builder role by choosing the build tab located near the top left of the screen.
Once in the build tab, choose Manage Course then choose Tools.
This screen allows you to toggle the tools on or off depending on your needs. Make sure the check box beside is checked if you wish that tool to be present, if not make sure the check box is blank.
Once you have checked all the tools you wish to use, click Save at the bottom of the screen. You should now see that your course menu reflects the changes.