We have a template in our WordPress theme and when editing a page associated with that theme, we have numerous Screen Options, I think they are custom post types, see screen shot:
http://awesomescreenshot.com/00d47jxy0e
I have duplicated the template, renamed it, and uploaded it to improve its layout. But when I edit any Page using this new template file, the Screen Options are reduced. It's like the Screen Options are associated by template name. But I cannot find a link in the code - could it be in the database somewhere? Here is the Screen Options when some are missing:
http://awesomescreenshot.com/0e747jz1a8
Hope someone can help!