I am creating a site where authenticated users (not too computer savvy) will be entering in data to the content types we create and the "Provide a Menu Link" may cause them too much trouble. Is there a way to remove or hide this option when I create my custom content types?
You can do this by creating a special role for your non-computer savvy users (go to People menu, then click on Roles tab and add a role). Once you have their role defined, that role will now appear as a long list of checkboxes on the right under the Permissions tab. Scroll down and make sure you uncheck the Menus (Administer menus and menu items) permission. This should prevent them from ever seeing the "Provide a Menu Link" tab when they edit content and/or messing up your menu structure. You can verify this by logging in as that role and then adding/editing content. This also gives higher-level users with Menu permissions (like yourself) the ability to edit menu preferences and tidy up as needed.