The title and content checkbox statuses depend if the Search in title and Search in content options are enabled under the General Options -> Sources panel.
Custom Post Type Filters
Choose the post type filters from the left side, drag them to the right side to activate. The filter checkbox statuses (checked or unchecked) depend if the custom post type is selected under the General Options panel.
Post category Filters
When enabled, all the categories are displayed within the filter. Drag the categories you want to exclude from the left side of the Select which categories to exclude selector to the right side.