The way I handle Water In Fuel situation is to drain tank clean lines and change filters first. If it saves the engine then good. If not I then start changing injectors and fuel pumps and what not but I try to save the customer some money first. 9 times out of 10 that all it needs. There are those rare instances where injectors start falling left and right or the pump needs to be changed.
One tech in the shop had a company truck that put in trash fuel and he had to install a pump and a couple of injectors. The truck ran smooth and he let it go. Came back a couple of days later and the company put the same fuel back into the truck which caused alot of problems and they had to cough up alot of money the second time around. All injectors, pump, filters and sending unit.