Do battery charging utilities such as Battery Boost Magic pro or Kingsoft battery doctor really make a difference in prolonging the life of an iPad battery?
No it really can't. What it can do, is show you how much battery the device has left, and hence motivate you to conserve battery with dimming the screen, and perform activities that are less battery intensive.
Apps in iOS are sandboxed heavily and consequently can't perform system-level functions that might possibly be used to conserve battery. The other problem with this sandboxing is it would likely mean any battery conservation would have to happen while the app is open, and the device unlocked. iOS 5 allows certain processes to continue running in the background, but those include things like using the accelerometer, GPS, and such. This again comes back to iOS apps not allowing access to many system-level processes.