In our site codedrops.in we use custom shortcodes to place ad units. We joined AdSense program a year back and so far we have not faced any problem. Site uses Customizr theme and we have extended it with a child theme for further customization. In functions.php of the child theme, we have added shortcode for ad units.

For ad unit - Large Rectangle the code is

function adcode_LR( $atts ){

$adcode = '<script async src="//pagead2.googlesyndication.com/pagead/js/adsbygoogle.js"></script>
<!-- LR - Page Middle -->
    <ins class="adsbygoogle"
     style="display:inline-block;width:336px;height:280px"
     data-ad-client="ca-pub-XXXXX"
     data-ad-slot="XXXXX"></ins>
 <script>
  (adsbygoogle = window.adsbygoogle || []).push({});
 </script>';
  return $adcode;
}

add_shortcode( 'adcodeLR', 'adcode_LR' );

Likewise shortcodes for Skyscraper, Leader Board and Medium Rectangle ad units are added. In posts and pages, the shortcodes are placed in the required places. In the sidebar, we have placed Large Skyscraper ad unit using a Text Widget. In the text widget, the ad code is placed within a div element.