Create an html file, paste in the following:

    <table class="">
	<tr 
		ng-repeat="item in items| filter:{ 
				f1: (filters:f1 || ''), 
				f2: (filters:f2 || ''), 
				f3: (filters:f3 || '')}"
		>
	</tr>
    </table>
    <script type="text/javascript">
	(function () {
		function foo() {
			$x = 2;
		}
	})(jQuery);
    </script>

Run autoformat and all the javascript is left justified instead of being indented correctly.

Remove one line so your text is like this:

    <table class="">
	<tr 
		ng-repeat="item in items| filter:{ 
				f1: (filters:f1 || ''), 
				f3: (filters:f3 || '')}"
		>
	</tr>
    </table>
    <script type="text/javascript">
	(function () {
		function foo() {
			$x = 2;
		}
	})(jQuery);
    </script>

and now the autoformatting works correctly.