The regulator update is a ford/international product, it is not an aftermarket part. It is OEM. Same with the bolts. They are not 6.0 SPECIFIC, but it is not going to make them flip a B**** over it. Especially for that minor of a part that is not necessarily noticed. Even during tear down.
The edge is ok to have if you do not push the truck to produce past the stock power ratings.
Read this thread.
edge juice with attitude, no display, truck runs bad
All of the power level settings are the same, exact same. The only thing that changes is the throttle input.
So 0 and 5 are the same, except the throttle input.
It would be better to get the oem air filter back on there.
For the coolant system, oil cooler, and egr cooler. Since you are worried about the warranty, I would do a coolant flush, and put new ford coolant in. This will clean out the casting sand and --help prevent-- the silicates from forming by putting new coolant in. I doubt you have any silicate build up since you only have 2,000 miles on the motor and coolant. But there is a chance that you have casting sand. This depends on how ford got you that engine. And that I do not know. Even just a simple system drain and fill of new 50/50 of ford coolant will do a good amount of help will cleaning out the casting sand (if there is sand) and replenishing the coolant chemical strength(preventing silicates from building up).
My dealership did not care that I had a coolant filter on when they did my head gaskets with arp's, oil cooler, egr cooler, turbo under warranty. I also took it in after that a few times for some minor leaks.
I would also try and electronically unplug your egr valve. If you notice any issues, plug the connector back in and clear the codes.