I have the Prestone Flush kits installed. The instructions with those say you run the engine and that is how I have always done it. Those kits do not back-flush. As Leo said, with the engine running, the water pump is going to force water one direction. I warm up the car, drain and refill with water and some flush additive which nowadays is mainly a surfactant. I warm it up again and drain. Once the engine is has cooled down, hook up the garden hose and install the flow neck in the radiator. I start the car and flush the engine until clean.
Then with the water still flowing or not, I pull the block plugs and open radiator drain. Continue flushing those and then maybe even run the car some more.
I am careful to not introduce cold water from the hose into a hot engine and risk cracking something.
Doug