Getting all ID’s matching a title in a custom post type

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Just change the $args array to this:

//Let's say you're searching the posts with the title 'The searched post':
$pages = array();
$args1 = array(
    's' => 'The searched post',
    'post_type' => 'course-manager',
    'posts_per_page' => -1
);
query_posts( $args1 );

Your query_posts will return all the posts with the title alike ‘The searched post’.