Where are the custom types as navigation menu items?

It does work that way, Setting the Show in Navigation Menu shows the custom post type in Menus.
Can you prove me the WordPress version you care using?

-Xydac

WP 4.0

As example the options of a custom post type made by your plugin but not showed on the menu management page:
Public = true
Publicly Queryable = true
Exclude from search = false
Show UI = true
Query Var = true
Can Export = true
Show in Navigation Menu = true
Show in Menu = true
Has Archive = true
Map Meta Capabilities = true
Hierarchical = false
Menu Position = Below Post

The menus management page only shows “Pages”, “Links” and “Categories”, but no further box for custom types which I would expect there.

I have the same configuration on my other sites and it seems to work pretty well..

Is there any way i could log in and see>

Yes, I tried to mail you from your contact page of your website, but there occured a 502 bad gateway error. What is you e-mail address?

you can mail me at deepak.seth[@] xydac.com

Hi Deepak, I sent you an email.

I am sorry but i haven’t received any mail.
Hope you have sent it to [email protected]

Did you get my mail yesterday?

Yes, I did I checked the site and actually the boxes of custom post type are hidden from screen option.

I have done it for now, but all you needed to do was goto Menus -> Show on the Sccreen option on top right -> check the required box.

Hope it helped.
-Xydac

It was so easy, fine! Could they be activated by default?