Im duplicating a zen sub theme so that I can later modify the styling. Ive duplicated the theme folder and changed its name. Ive changed the .info file name, and ive changed the theme name for theme overrides in my template.php and theme-settings.php.
When I enable the new theme its very much like the old one but there are still some differences. Ive looked at the theme settings pages in drupal and applied the settings from the original theme to the new one, but there are still some differences.
What other settings to do with the theme would not have been copied across with the files and also arn't visible on this page?
The only module that Ive found that I think could be affecting the layout is Panels which controls a couple of pages. Ive changed the selection criteria from themeA to themeB so I dont think its this module causing the difference.