Well, there are many factors. Rider speed and aggression is generally the #1 factor. The other factors are self explanatory; track speed, length of braking zones and cool down areas. Some tracks are real on/off and other tracks have long straights to help cool your brakes between corners.
I've personally done many back to back (stock vs race bike) tests and the difference has been literally night and day. Where the stock kit is actually better when cold, the moment you start to put in some serious laps, it fades fast. The full race kit (pads/rotors/master cylinder/dual SS lines) takes time to warm up, you literally have very little braking force on the first lap, which is why that warm up lap is so important. I always brake real hard into every corner on that lap, pretending it was a heat race, rather then just a slow make sure everything is together lap. This way there is plenty of heat in my brakes before the race start.
I have tested and owned other brands of bikes, they've all suffered from identical brake fade on-track. So it's not a Ducati specific thing what so ever.