Only Traktor Pro would be enough...?
The CDJ-2000 works great with midi?in HID-mode, that means it really works intuitive, the same as in the normal CD-mode.
So Traktor Scratch would is a waste of money in your case and my opinion
The best option is (and maybe you'll use it that way): Traktor Scratch Pro for your CDJ-1000's?and using midi with the CDJ-2000's.
That scratching vid sucks.. But for scratching?with?Pioneer cd-players it's quite good, cause the Pioneers really suck at scratching...