Display Deprecated Capabilities: If enabled, deprecated capabilities will be displayed within the add/edit screens.
Remove Non-Standard Capabilities on Restore: If enabled, while restoring WordPress built-in capabilities non-standard capabilities will be removed. Non-standard capabilities are usually created by plugins and themes.
Override Edit Permissions: If enabled, ignores the check to the function get_editable_roles. Since this function’s behavior can be modified by the editable_roles filter, some roles in your site won’t be editable depending upon the plugins and themes you have. Enable this when you want all roles to be editable. For more information get_editable_roles
Disable Navigation Menu Permissions: If enabled, completely disables the Navigation Menu Permissions functionality. Recommended if this functionality collides with any of the existing plugin.
Customize Permissions(custom post types): Allows you to create capabilities for custom post types.
Remove Data on Uninstall: Allows you to wipe out all tables and data created by this plugin on uninstall.