I knew going into my built that the modular was not less expensive (on top of the $7k there is another $1500 for the electronics and more labor to install) but the draw was reliability, longevity and the ability to flash a tune for the driving I wanted to do. The fuel injection and variable valve timing on the coyote are impressive and responsive while maintaining a very street-able demeanor for daily (nice weather) driving. The only thing that took some getting used to was the throttle by wire as there is definitely a point on the gas pedal where it shuts down fuel completely on deceleration.
For a relatively small adder I opted for the aluminator version:
Ford Racing 5.0L Aluminator Crate Engine Build - YouTube
With the stronger build: better rods, pistons and valve train, after my 2 year warranty period is up or close to up next winter, I will either add a supercharger or twin turbo system (if it can be routed) with a new tune to flash for the additional bolt-ons. The fact that I get nearly 20MPG combined driving is just a bonus.
I like the new technology, but that is just my opinion and what I wanted for my enjoyment as I plan to drive this Cobra every chance I get. With 3000 miles in under 10 months in the Northeast, it is not just sitting in the garage. I am sure there are plenty who disagree with my viewpoint, but in the end it is a replica and you should build it how you want it.
Julian