Script errors when upgrading from metabox 4.5 > 4.8

Sorry this is going to be quite a chunk of code....

<?php
add_filter( 'rwmb_meta_boxes', 'course_register_meta_boxes' );

function course_register_meta_boxes( $meta_boxes )
{
    $prefix = 'course_';
    
    // Course types set by slug
    $he = get_term_by('slug', 'he', 'course_type');
    $he = $he->term_id;
    
    $fe16_18 = get_term_by('slug', 'fe16_18', 'course_type'); 
    $fe16_18 = $fe16_18->term_id;
    
    $fe19plus = get_term_by('slug', 'fe19plus', 'course_type');
    $fe19plus = $fe19plus->term_id;
    
    $b2b = get_term_by('slug', 'b2b', 'course_type');
    $b2b = $b2b->term_id;
    
    $apprentice = get_term_by('slug', 'apprentice', 'course_type');
    $apprentice = $apprentice->term_id;
    
    $alc = get_term_by('slug', 'alc', 'course_type');
    $alc = $alc->term_id;    
    
	$meta_boxes[] = array(
		'id'         => 'he_subtitle',
		'title'      => __( 'Sub-Title'),
        'post_types' => 'courses', 
		'priority'   => 'high',
		'autosave'   => true,
        'context'    => 'side',
        'visible' => array('course_type_select', 'in', "{$he},{$fe19plus},{$fe16_18}"),
		'fields'     => array(
			// Course referance code
			array(
				'name'  => __( '' ),
				'id'    => "{$prefix}he_subtitle",
				'desc'  => __( 'HE sub-title (Year of entry) or Subsidiary title for FE Courses' ),
				'type'  => 'text',
			),
        ),
    );
    
    // course type
	$meta_boxes[] = array(
		'title'  => __( 'Course Type'),
        'post_types' => 'courses', 
        'context'    => 'side', 
        'post_types' => 'courses', 
		'priority'   => 'high',
		'autosave'   => true,        
		'fields' => array(
			// COURSE TYPE CHECKBOX LIST 
			array(
				'name'    => __( ''),
				'id'      => "{$prefix}type_select",
				'type'    => 'taxonomy',
                'required'  => true,
				'taxonomy' => 'course_type',
				'field_type'  => 'select_advanced',
				'js_options'  => array( 'multiple' => true, ),
				'multiple'    => true,
            ),

                    
                    //KIS code
                    array(
                        'name'  => __( 'KIS CODE', 'kis_code' ),
                        'id'    => "{$prefix}kis_code",
                        'visible' => array('course_type_select', 'in', "{$he}"),
                        'type'  => 'number',
                    ),  
                    //KIS institution code
                    array(
                        'name'  => __( 'KIS institution CODE' ),
                        'id'    => "{$prefix}kis_institution_code",
                        'visible' => array('course_type_select', 'in', "{$he}"),   
                        'type'  => 'number',
                    ),     
                    //UCAS Course Code
                    array(
                        'name'  => __( 'UCAS Course CODE' ),
                        'id'    => "{$prefix}ucas_course_code",
                        'visible' => array('course_type_select', 'in', "{$he}"),                 
                        'type'  => 'text',
                        'attributes' => array(
                            'maxlength' => 4,
                        ),                        
                    ), 
                    //UCAS institution code
                    array(
                        'name'  => __( 'UCAS Institution CODE' ),
                        'id'    => "{$prefix}ucas_institution_code",
                        'type'  => 'select',
                        'visible' => array('course_type_select', 'in', "{$he}"),                
                        'placeholder' => __( 'Please select...' ),
                        'options'  => array(
                            'B18' => __( 'Bicton College (Plymouth)', '' ),
                            'CORN C78' => __( 'Cornwall College', '' ),
                            'DUCHY D55' => __( 'Duchy College', '' ),
                        ),
                    ), 
                    //HE Course FEES
                    array(
                        'name'  => __( 'Course Fee', 'he_course_fee' ),
                        'id'    => "{$prefix}he_course_fee",
				        'type' => 'number',
                        'desc'  => __( '(per annum)' ),
                        'visible' => array('course_type_select', 'in', "{$he}"),  'attributes' => array(
                        ),                        
                    ),              
                ),
           
       
    );          
    
//Course structure in the sidebar    
	$meta_boxes[] = array(
		'id'         => 'course_structure',
		'title'      => __( 'Course Structure', 'course_structure' ),
        'post_types' => 'courses', 
        'context'    => 'side',   
		'priority'   => 'low',
		'autosave'   => true,
		'fields'     => array(
			// Course referance code
			array(
				'name'  => __( 'Course Reference Code', 'ref_code' ),
				// Field ID, i.e. the meta key(prefixed with course_)
				'id'    => "{$prefix}ref_code",
				'desc'  => __( 'Course reference code' ),
				'type'  => 'text',
			),
			// learning area TAXONOMY
			array(
				'name'    => __( 'Learning Area:' ),			
				'id'   => "{$prefix}cluster",
				'type' => 'taxonomy',
				'taxonomy'    => 'cluster',
				'field_type'  => 'select_advanced',
				'query_args'  => array(),
				'js_options'  => array( 'multiple' => true, ),
				'multiple'    => true,
				'placeholder' => 'Select area...',
			),			
			           
			// Level TAXONOMY
			array(
				'name'    => __( 'Course Level', 'level' ),
				'id'      => "{$prefix}level_taxonomy",
				'type'    => 'taxonomy',
                'required'  => true,
				'field_type' => 'select',
				'taxonomy' => 'level',				
				'query_args'  => array(),

			),    
            //Campus TAXONOMY 
			array(
				'name'    => __( 'This course is avalible at:', 'campuses' ),
				'id'      => "{$prefix}campuses",
				'type'    => 'taxonomy',
				'taxonomy' => 'campus',
				'field_type'  => 'select_advanced',
				'js_options'  => array( 'multiple' => true, ),
				'multiple'    => true,				
				'query_args'  => array(),
			),
			// brand TAXONOMY
			array(
				'name'    => __( 'Course Brand(s):', 'brands' ),
				'id'      => "{$prefix}brands",
				'type'    => 'taxonomy',
				'taxonomy' => 'brand',
				'field_type'  => 'select_advanced',
				'js_options'  => array( 'multiple' => true, ),
				'multiple'    => true,
				'query_args'     => array(),
		
			), 
            array(
				'name'    => __( ''),
				'id'      => "{$prefix}trail_blazer",
				'type'    => 'radio',
                'visible' => array('course_type_select', 'in', "{$apprentice}"),
				'options' => array(
                    'true' => 'Trail Blazer'
                ),
            ),            
		),
        
// VALIDATION =========================================================================================================
		'validation' => array(
			'rules'    => array(
				"{$prefix}ref_code" => array(
					'required'  => true,
				),
				"{$prefix}cluster[]" => array(
					'required'  => true,
				),                   
				"{$prefix}level_taxonomy[]" => array(
					'required'  => true,
				),      
				"{$prefix}campuses[]" => array(
					'required'  => true,
				),             
				"{$prefix}brands[]" => array(
					'required'  => true,
				),                 
			),
			// optional override of default jquery.validate messages
			'messages' => array(
				"{$prefix}master_code" => array(
					'required'  => __( 'Course Master Code is required', 'master_code' ),
				),
				"{$prefix}cluster[]" => array(
					'required'  => __( 'A Learning Area is required', 'cluster' ),
				),                    
				"{$prefix}level_taxonomy[]" => array(
					'required'  => __( 'Course Level is required', 'level_taxonomy' ),
				),             
				"{$prefix}campuses[]" => array(
					'required'  => __( 'A Campus is required' ),
				),
				"{$prefix}brands[]" => array(
					'required'  => __( 'A brand is required' ),
				),                 
			)
		)           
        
	);
    
	$meta_boxes[] = array(
		'id'         => 'course_info_area',
		'title'      => __( 'Course Information' ),
        'post_types' => 'courses', 
		'priority'   => 'high',
		'autosave'   => true,
        //'context'    => 'side',
        'hidden' => array('course_type_select', 'in', "{$he},{$alc}"),        
		'fields' => array( 
            //Ideal if..
			array(
				'name'    => __( 'Ideal if', 'ideal_if' ),
				'id'      => "{$prefix}ideal_if",
				'type'    => 'wysiwyg',
                'desc'  => 'Summary of what you get',
				'hidden' => array('course_type_select', 'in', "{$apprentice}"),
				'raw'     => false,
				'options' => array(
					'textarea_rows' => 4,
					'teeny'         => true,
					'media_buttons' => false,
				),
			),               
			// will need...
			array(
				'name'    => __( 'Will Need', 'will_need' ),
				'id'      => "{$prefix}will_need",
				'type'    => 'wysiwyg',
                'desc'  => 'Entry requirements', 
				'raw'     => false,
				'options' => array(
					'textarea_rows' => 4,
					'teeny'         => true,
					'media_buttons' => false,
				),
			),  
			// will learn...
			array(
				'name'    => __( 'Will Learn', 'will_learn' ),
				'id'      => "{$prefix}will_learn",
				'type'    => 'wysiwyg',
                'desc'  => 'List of core topics and skills',                
				'raw'     => false,
				'options' => array(
					'textarea_rows' => 4,
					'teeny'         => true,
					'media_buttons' => false,
				),
			),      
			// expect...
			array(
				'name'    => __( 'Expect', 'expect' ),
				'id'      => "{$prefix}expect",
				'type'    => 'wysiwyg',
                'desc'  => 'This is a chance to talk about the learning experience and structure',  
                'hidden' => array('course_type_select', 'in', "{$apprentice}"),
				'raw'     => false,
				'options' => array(
					'textarea_rows' => 4,
					'teeny'         => true,
					'media_buttons' => false,
				),
			),    
			// will love...
			array(
				'name'    => __( 'Will Love', 'will_love' ),
				'id'      => "{$prefix}will_love",
				'type'    => 'wysiwyg',
                'desc'  => 'Any course spercific selling points',  
                'hidden' => array('course_type_select', 'in', "{$apprentice}"),
				'raw'     => false,
				'options' => array(
					'textarea_rows' => 4,
					'teeny'         => true,
					'media_buttons' => false,
				),
			),
			// go to...
			array(
				'name'    => __( 'Go On To', 'go_to' ),
				'id'      => "{$prefix}go_to",
				'type'    => 'wysiwyg',
                'desc'  => 'Progression routes',                
				'raw'     => false,
                    'options' => array(
                        'textarea_rows' => 4,
                        'teeny'         => true,
                        'media_buttons' => false,
                    ),
                ),
            //go to (course progression select)
			array(
				'name'        => __( 'Progression Courses' ),
				'id'          => "{$prefix}progression",
				'type'        => 'post',
				'post_type'   => 'courses',
				// Field type, either 'select' or 'select_advanced' (default)
				'field_type'  => 'select_advanced',
				'placeholder' => __( 'Select a course' ),
				// Query arguments (optional). No settings means get all published posts
				'query_args'  => array(
					'post_status'    => 'publish',
					'posts_per_page' => - 1,
			     ),
                'clone' => true,
            ),       
            
        ),
    );
    
    
            //Similar courses to this one (course select)
    $meta_boxes[] = array(
		'title'  => __( 'Similar courses to this one' ),
        'post_types' => 'courses', 
        'context'    => 'normal',   
        'priority'   => 'low',
		'fields' => array(     
			array(
				'name'        => __( 'Select a similar course' ),
				'id'          => "{$prefix}similar_courses",
				'type'        => 'post',
				'post_type'   => 'courses',
				// Field type, either 'select' or 'select_advanced' (default)
				'field_type'  => 'select_advanced',
				'placeholder' => __( 'Select a course' ),
				// Query arguments (optional). No settings means get all published posts
				'query_args'  => array(
					'post_status'    => 'publish',
					'posts_per_page' => - 1,
			     ),
                'clone' => true,
            ),  
        ),
    );          
    
    
// Course Video Gallery    
    $meta_boxes[] = array(
		'title'  => __( 'Course Video Gallery' ),
        'post_types' => 'courses', 
        'context'    => 'normal',   
        'priority'   => 'low',
		'fields' => array(    
 			// OEMBED
			array(
				'name' => __( 'oEmbed', 'your-prefix' ),
				'id'   => "{$prefix}video_gallery",
				'desc' => __( 'paste your embed code to link videos' ),
				'type' => 'oembed',
                'clone' => true, 
			),
        ),
	);              
// Course image gallery upload
    
    // PLUPLOAD IMAGE UPLOAD (WP 3.3+)
    $meta_boxes[] = array(
		'title'  => __( 'Course Gallery', 'gallery' ),
        'post_types' => 'courses', 
        'context'    => 'normal',   
        'priority'   => 'low',
		'fields' => array(
            array(
				'name'             => __( '', 'course-gallery' ),
				'id'               => "{$prefix}plupload",
				'type'             => 'plupload_image',
                'desc'  => __( 'File Size 1mb MAX' ),
				'max_file_uploads' => 10,
			),
		)
	);        
 // Course start date and location group
     $meta_boxes[] = array(
		'title'  => __( 'Course Offering Dates', 'course_offerings' ),
        'post_types' => 'courses', 
        'context'    => 'normal',   
        'priority'   => 'low',     
		'fields' => array(
                // Group
                array(
                    //'name' => 'Start Dates', // Optional
                    'id' => 'course_offering',
                    'type' => 'group',
				    'clone'  => true,
				    'sort_clone' => true,                    
                    // List of sub-fields
                    'fields' => array(
                        //offering title
                        array(
                            'name'  => __( 'Offering Title', 'offering_title' ),
                            'id'    => "{$prefix}offering_title",
                            'type'  => 'text',
                        ),  
                        // Course offering code
                        array(
                            'name'  => __( 'Course Offering Code', 'offer_code' ),
                            // Field ID, i.e. the meta key(prefixed with course_)
                            'id'    => "{$prefix}offer_code",
                            'desc'  => __( 'Course offering code' ),
                            'type'  => 'text',
                            'required'  => true,
                        ), 
                        // Long course (September start with current year)
                        array(
                            'name' => esc_html__( 'Long Course with September Start' ),
                            'id'   => "{$prefix}long_course",
                            'type' => 'checkbox',
                            'desc'  => __( 'Tick this if this offer has a Septmber start every Year (this will remove start and end date options)' ),
                            // Value can be 0 or 1
                            'std'  => 0,
                        ),                        
                                                
                        //offering start date
                        array(
                            'name'       => __( 'Course Start Date', 'course_start_date' ),
                            'id'         => "{$prefix}date",
                            'type'       => 'date',
                            'required'  => true,
                            'visible' => array("{$prefix}long_course", false),
                            // jQuery date picker options. See here http://api.jqueryui.com/datepicker
                            'js_options' => array(
                                'appendText'      => __( '(dd-mm-yyyy)' ),
                                'dateFormat'      => __( 'dd-mm-yy' ),
                                'changeMonth'     => true,
                                'changeYear'      => true,
                                'showButtonPanel' => true,
                            ),
                        ),      
                        //offering campus location
                        array(
                            'name'    => __( 'This course is avalible at:', 'offering_campuses' ),
                            'id'      => "{$prefix}offering_campus",
                            'required'  => true,
                            'type'    => 'taxonomy',
                            'options' => array(
                                // Taxonomy name
                                'taxonomy' => 'campus',
                                // How to show taxonomy: 'checkbox_list' (default) or 'checkbox_tree', 'select_tree', select_advanced or 'select'. Optional
                                'type'     => 'select',
                                'id'      => "offering_campus",
                                // Additional arguments for get_terms() function. Optional
                                'args'     => array()
                            ),                        
                        ),

                        //course duration
                        array(
                            'name'  => __( 'Duration', 'your-prefix' ),
                            'id'    => "{$prefix}duration",
                            // Field description (optional)
                            'desc'  => __( 'e.g. 3 day course', 'duration' ),
                            'type'  => 'text',
                            'required'  => true,
                            // Default value (optional)
                            //'std'   => __( 'Default text value', 'duration' ),
                            // CLONES: Add to make the field cloneable (i.e. have multiple value)
                        ), 
                        // off site?
                        array(
                            'name'    => __( 'This course is off site?', 'off_site_check' ),
                            'id'      => "{$prefix}off_site_check",
                            'type'    => 'checkbox',
                            'std'  => 0,
                        ),
                        // days of the week !*--FE, ALC ONLY--*!
                        array(
                            'name'    => __( 'Day(s) of the week', 'course_days_of_week' ),
                            'id'      => "course_days_of_week",
                            'visible' => array('course_type_select', 'in', "{$fe19plus},{$alc}"),       
                            'type'    => 'checkbox_list',
                            'std'  => 0,
                            // Options of checkboxes, in format 'value' => 'Label'
                                'options' => array(
                                    'mon' => __( 'Monday'),
                                    'tue' => __( 'Tuesday'),
                                    'wed' => __( 'Wednesday'),
                                    'thu' => __( 'Thursday'),
                                    'fri' => __( 'Friday'),
                                    'sat' => __( 'Saturday'),
                                ),
                        ),   
                        // Course Start TIME !*--FE, ALC ONLY--*!
                        array(
                            'name'       => __( 'Course Start Time' ),
                            'id'         => $prefix . 'start_time',
                            'visible' => array('course_type_select', 'in', "{$fe19plus},{$alc}"),      
                            'type'       => 'time',
                            // jQuery datetime picker options.
                            // For date options, see here http://api.jqueryui.com/datepicker
                            // For time options, see here http://trentrichardson.com/examples/timepicker/
                            'js_options' => array(
                                'stepMinute' => 5,
                                'showSecond' => true,
                                'stepSecond' => 10,
                            ),
                        ),
                        // Course End TIME !*--FE ONLY--*!
                        array(
                            'name'       => __( 'Course End Time' ),
                            'id'         => $prefix . 'end_time',
                            'visible' => array('course_type_select', 'in', "{$fe19plus},{$alc}"), 
                            'type'       => 'time',
                            // jQuery datetime picker options.
                            // For date options, see here http://api.jqueryui.com/datepicker
                            // For time options, see here http://trentrichardson.com/examples/timepicker/
                            'js_options' => array(
                                'stepMinute' => 5,
                                'showSecond' => true,
                                'stepSecond' => 10,
                            ),
                        ),  
                        // DIVIDER
                        array(
                            'type' => 'divider',
                            'id'   => 'fake_divider_id', // Not used, but needed
                        ),        
						// Additional Information
						array(
							'name' => __( 'Additional Information' ),
							'desc' => __( 'Extra course information about this offering' ),
							'id'   => "{$prefix}add-offer-info",
							'type' => 'textarea',
							'cols' => 20,
							'rows' => 4,
						),		
										
                        // DIVIDER
                        array(
                            'type' => 'divider',
                            'id'   => 'fake_divider_id', // Not used, but needed
                        ), 			
						                  
                        //course cost for ALC
                        array(
                            'name' => __( 'Course Cost' ),
                            'id'   => "{$prefix}offer_cost",
                            'type' => 'number',
                            'desc'  => __( 'enter a course cost in pounds (30.50)you DO NOT PREPEND with £', 'duration' ),                            
                            'visible' => array('course_type_select', 'in', "{$alc}"),                             
                            'min'  => 0,
                            'step' => 5,
                        ),                        
                        // Map requires at least one address field (with type = text)
                        array(
                            'id'   => 'address',
                            'name' => __( 'Address', 'your-prefix' ),
                            'type' => 'text',
                            'std'  => __( 'Trevenson Rd, Pool, Redruth, Cornwall TR15 3PG, UK', 'map' ),
                            'visible' => array("off_site_check", true)

                        ),
                        array(
                            'id'            => 'map',
                            'name'          => __( 'Location'),
                            'type'          => 'map',
                            // Default location: 'latitude,longitude[,zoom]' (zoom is optional)
                            //'std'           => '-6.233406,-35.049906,15',
                            // Name of text field where address is entered. Can be list of text fields, separated by commas (for ex. city, state)
                            'address_field' => 'address',
                            'visible' => array("off_site_check", true)
                        ),

                        
                ),            
            ),
        )
    );
    
/* HE COURSE Module information WYSIWYG */
	$meta_boxes[] = array(
		'id'         => 'he_area',
		'title'      => __( 'HE Course Information', 'he_area' ),
        'post_types' => 'courses', 
		'priority'   => 'low',
		'autosave'   => true,
        //'context'    => 'side',
        'visible' => array('course_type_select', 'in', "{$he}"),       
		'fields' => array( 
			// HE Module Information
            array(
                'name'    => __( 'HE Entry Requirements' ),
                'id'      => "{$prefix}he_entry_requirements",
                'type'    => 'wysiwyg',
                //'desc'  => 'List of modules',                            
                // Set the 'raw' parameter to TRUE to prevent data being passed through wpautop() on save
                'raw'     => false,
                // Editor settings, see wp_editor() function: look4wp.com/wp_editor
                'options' => array(
                    'textarea_rows' => 10,
                    'media_buttons' => false,
                ),
            ),  
			// DIVIDER
			array(
				'type' => 'divider',
				'id'   => 'fake_divider_id', // Not used, but needed
			),              
                // Group
                array(
                    'name' => 'Module Information',
                    'id' => 'module_information',
                    'type' => 'group',
				    'clone'  => true,
				    'sort_clone' => true,                    
                    // List of sub-fields
                    'fields' => array( 
                        array(
                            'name'  => 'Module Group Title',
                            'desc'  => 'Year/Options etc.',
                            'id'    => $prefix . 'module_group_title',
                            'type'  => 'text',
                        ),                        
                        array(
                            'name'    => __( 'Module Details' ),
                            'id'      => "{$prefix}he_module_detail",
                            'type'    => 'wysiwyg',
                            'desc'  => 'List of modules',                            
                            // Set the 'raw' parameter to TRUE to prevent data being passed through wpautop() on save
                            'raw'     => false,
                            // Editor settings, see wp_editor() function: look4wp.com/wp_editor
                            'options' => array(
                                'textarea_rows' => 6,
                                'media_buttons' => false,
                            ),
                        ),
                    ),
                ),
			// DIVIDER
			array(
				'type' => 'divider',
				'id'   => 'fake_divider_id', // Not used, but needed
			),            
            // HE Progression Courses
			array(
				'name'        => __( 'Progression Courses' ),
				'id'          => "{$prefix}he_progression",
                'visible' => array('course_type_select', 'in', "{$he}"),                
				'type'        => 'post',
				// Post type
				'post_type'   => 'courses',
				// Field type, either 'select' or 'select_advanced' (default)
				'field_type'  => 'select_advanced',
				'placeholder' => __( 'Select a course' ),
				// Query arguments (optional). No settings means get all published posts
				'query_args'  => array(
					'post_status'    => 'publish',
					'posts_per_page' => - 1,
			     ),
                'clone' => true,
            ),
			// DIVIDER
			array(
				'type' => 'divider',
				'id'   => 'fake_divider_id', // Not used, but needed
			),            
            // Awarding University
            array(
                'name'    => __( 'Awarding University', 'awarding_uni' ),
                'id'      => "{$prefix}awarding_uni",
                'type'    => 'taxonomy',
                'options' => array(
                    // Taxonomy name
                    'taxonomy' => 'awarding_uni',
                    // How to show taxonomy: 'checkbox_list' (default) or 'checkbox_tree', 'select_tree', select_advanced or 'select'. Optional
                    'type'     => 'select',
                    'id'      => "awarding_uni",
                    // Additional arguments for get_terms() function. Optional
                    'args'     => array()
                ),
                'visible' => array('course_type_select', 'contains', "{$he}"), 
            ), 
			// DIVIDER
			array(
				'type' => 'divider',
				'id'   => 'fake_divider_id', // Not used, but needed
			),
			// COURSE DOCS FILE UPLOAD
			array(
				'name' => __( 'HE Course Documents' ),
				'id'   => "{$prefix}he_file",
				'type' => 'file',
			),   
			// DIVIDER
			array(
				'type' => 'divider',
				'id'   => 'fake_divider_id', // Not used, but needed
			),            
            //Research Docs Group 
                array(
                    'name' => 'Research Documents',
                    'id' => "{$prefix}research_documents",
                    'type' => 'group',
				    'clone'  => true,
				    'sort_clone' => true,                    
                    // List of sub-fields
                    'fields' => array( 
                        array(
                            'name'    => __( 'Research Introduction' ),
                            'id'      => "{$prefix}research_intro",
                            'type'    => 'wysiwyg',
                            // Set the 'raw' parameter to TRUE to prevent data being passed through wpautop() on save
                            'raw'     => false,
                            // Editor settings, see wp_editor() function: look4wp.com/wp_editor
                            'options' => array(
                                'textarea_rows' => 6,
                                'media_buttons' => false,
                            ),
                        ),                        
                        // Research DOCS FILE UPLOAD
                        array(
                            'name' => __( 'Research File Upload' ),
                            'id'   => "{$prefix}research_file",
                            'type' => 'file_advanced',
                        ),                          
                    ),
                ),
		)
	);      
// Staff/student/alumni Profile
    $meta_boxes[] = array(
		'title'  => __( 'Staff/Student/Alumni Profile', 'course_profile' ),
        'post_types' => 'courses', 
        'context'    => 'normal',   
        'priority'   => 'low',
		'fields' => array(    
			// POST
			array(
				'name'        => __( 'Select Profile' ),
				'id'          => "{$prefix}profile_post",
				'type'        => 'post',
				// Post type
				'post_type'   => 'profiles',
                'clone'  => true,
				// Field type, either 'select' or 'select_advanced' (default)
				'field_type'  => 'select_advanced',
				'placeholder' => __( 'Select a Profile' ),
                'desc'        => 'Select a staff or student profile from the list to attach it to this course',
                
				// Query arguments (optional). No settings means get all published posts
				'query_args'  => array(
					'post_status'    => 'publish',
					'posts_per_page' => - 1,
				)
			),
        )
    );       
//Student/employer quote (clone)
    $meta_boxes[] = array(
		'title'  => __( 'Student/Employer Quote', 'course_quote' ),
        'post_types' => 'courses', 
        'context'    => 'normal',   
        'priority'   => 'low',   
		'fields' => array(    
			array(
				'name' => __( 'Quote text', 'quote' ),
				'desc' => __( 'Student/employer quote', 'quote' ),
				'id'   => "{$prefix}quote",
				'type' => 'textarea',
				'cols' => 20,
				'rows' => 3,
		        'clone'  => true,        
                
			),
        )
    );         
    
    
 // All done now, output the meta   
    return $meta_boxes;
}

Hi, Thanks for the reply.
added those lines to the config and updated metabox and now get this(in the console) when in the post edit screen:

JQMIGRATE: Migrate is installed with logging active, version 1.4.0
jquery-migrate.js?ver=1.4.0:45 JQMIGRATE: jQuery.fn.live() is deprecated
jquery-migrate.js?ver=1.4.0:47 console.trace()migrateWarn @ jquery-migrate.js?ver=1.4.0:47
jquery.js?ver=1.12.3:2 
Uncaught Error: Syntax error, unrecognized expression: #course_cluster[]

Not sure if this helps, I thought the same thing regarding course_cluster[] I can't find it referenced anywhere.

Found the problem, or worked round it at least.
the problem was around JS validation, so once I had commented out this section, it worked:

// VALIDATION =================
		'validation' => array(
			'rules'    => array(
				"{$prefix}ref_code" => array(
					'required'  => true,
				),
				/*"{$prefix}cluster[]" => array(
					'required'  => true,
				),                
				"{$prefix}level_taxonomy[]" => array(
					'required'  => true,
				),      
				"{$prefix}campuses[]" => array(
					'required'  => true,
				),             
				"{$prefix}brands[]" => array(
					'required'  => true,
				),           */         
			),
			// optional override of default jquery.validate messages
			'messages' => array(
				"{$prefix}master_code" => array(
					'required'  => __( 'Course Master Code is required', 'master_code' ),
				),
				/*"{$prefix}cluster[]" => array(
					'required'  => __( 'A Learning Area is required', 'cluster' ),
				),                   
				"{$prefix}level_taxonomy[]" => array(
					'required'  => __( 'Course Level is required', 'level_taxonomy' ),
				),             
				"{$prefix}campuses[]" => array(
					'required'  => __( 'A Campus is required' ),
				),
				"{$prefix}brands[]" => array(
					'required'  => __( 'A brand is required' ),
				),         */         
			)
		)           
        
	);

not sure if this is an issue with my code or the loop though the validation rules is it was fine with the first rule, but I should be able to work round it adding the 'required' => true, to the field itself.

All sorted, thanks so much for your help.