On restart Launch Pad, Reminders, App Store and Notes appears back on Dock

I have installed Mountain Lion and loving most of the features.
I am using the five finger pinch shortcut on the trackpad to get to the Dashboard.
Its a great feature so now I have deleted all my apps on the dock.
Instead I have put my many folders on the dock.
However, on restart of my macbook pro the Launch Pad, Reminders, App Store and Notes appears back on dock
Is there a way I can switch this annoying push to have to use Apple apps on the dock?

I noticed it sometimes happened when I am on Lion.
I don't use all the Apple software, and some never even opened them to use.
But they end up back on my dock again which is super annoying.

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