I'm going to put down what I know and my opinions. I'm sure others may share theirs and correct anything I got wrong.
CP4s do not like low quality fuel, air, water, DEF, and bad luck. This is because it uses the incoming fuel to lubricate itself before pressurizing that same fuel to send to the injectors. When the CP4 encounters any of these things it creates excessive wear or damage creating metal "glitter" that it sends to the injectors ruining them as well and contaminating the entire fuel system making the whole ordeal very expensive. Disaster prevention kits separate the lubricating fuel from the pressurizing and injecting fuel and generally filter before the fuel cooler to contain the metal shavings. In theory this means only the CP4 needs replaced rather than the entire fuel system (in essence).
Here's the thing though. That only helps after a failure and only prevents your bad day from getting worse. It also doesn't prevent water, bad fuel, or DEF from getting to your injectors. These things can and will still wreck injectors meaning the disaster prevention kit didn't save you like you thought it would.
A step beyond this is replacing the failure prone CP4 with the DCR from S&S. This pump appears to be more robust meaning it won't fail as often, but it also will send bad fuel to the injectors without a care in the world. It isn't compatible with the disaster prevention kit except for the return side filter.
So in order of magnitude of how to prevent fuel system failure in my opinion:
1. Buy fuel from a quality station, drain your water out of your separator regularly, change your fuel filters regularly and correctly with quality filters, be sure to prime your fuel system well before starting, and pay attention and don't put the DEF nozzle where it doesn't belong (you're ahead of this one).
2. Use a fuel additive that separates or disperses water, is not alcohol based, and raises cetane.
3. Add to or upgrade your fuel filtration ahead of the CP4.
4. Add a disaster prevention kit and/or replace the CP4 with a DCR.