Combined multiple <script> tags output into one for readability, and added comments.

auto-thickbox.php

@@ -173,11 +173,13 @@ class auto_thickbox {
 	}
 
 	function custom_scripts() {
-		if ( $this->options['auto_thickbox'] == 'js') {
 ?>
 <script type="text/javascript">
 /* <![CDATA[ */
 jQuery(function($) {
+<?php
+		 if ( $this->options['auto_thickbox'] == 'js') {
+?>
 	var links = $('a[href][href!=""]').filter(function() {
 		// No ThickBox
 		var nothickbox = ['<?php echo str_replace(' ', '\', \'', trim($this->options['no_thickbox'])); ?>'];
@@ -225,41 +227,35 @@ jQuery(function($) {
 	// for WordPress 2.7.x (jQuery 1.2.6)
 	if (!$.isFunction($().live))
 		tb_init('a.thickbox');
-});
-/* ]]> */
-</script>
 <?php
 		}
 		if ( $this->options['wp_gallery'] == 'on') {
 ?>
-<script type="text/javascript">
-/* <![CDATA[ */
-jQuery(function($) {
+
+	// Set a different gallery-id for each WordPress Gallery
 	$('div.gallery').each(function() {
 		var id = $(this).attr('class').match(/galleryid-\d+/);
 		$(this).find('a.thickbox').attr('rel', id);
 	});
-});
-/* ]]> */
-</script>
 <?php
 		}
+?>
+});
 
-		if ( $this->options['builtin_res'] == 'on') {
+<?php
+		if ($this->options['builtin_res'] == 'on') {
 			if ( version_compare('3.2', get_bloginfo('version')) > 0 ) {
 				$includes_url = includes_url();
 				echo <<<SCRIPT
-<script type="text/javascript">
-//<![CDATA[
+// for ThickBox in WordPress 2.9 to 3.1.4
 var tb_pathToImage = "{$includes_url}js/thickbox/loadingAnimation.gif";
 var tb_closeImage = "{$includes_url}js/thickbox/tb-close.png";
-//]]>
-</script>
+
 SCRIPT;
 			}
-			return;
 		}
 
+		if ( $this->options['builtin_res'] == 'off') {
 		$script = '';
 
 		if ( !$this->is_default_options('auto_resize') )
@@ -334,7 +330,12 @@ SCRIPT;
 			$script .= "tb_options.ref_cap = [{$this->options['ref_cap']}];\n";
 
 		if ($script)
-			echo "<script type='text/javascript'>\n/* <![CDATA[ */\njQuery(function() {\n$script});\n/* ]]> */\n</script>\n";
+			echo "// Options for ThickBox Plus\n{$script}";
+		}
+?>
+/* ]]> */
+</script>
+<?php
 	}
 
 	function custom_styles() {