A couple of things, I read of a guy fighting a dual plane intake on FordMuscle, I do not see how that can happen and have never seen it happen on a bunch of TB installs, he also made some other changes after he blamed the intake. That being said, if there was an issue, add a 1/2 or 1 inch open spacer
That system though, seems like a FAST copy, or Summit branded FAST. So far the FAST hasn't turned out to be as good at learning as some of the other ones and has very limited programming. Not to mention it is pretty expensive compared to the Sniper and FITech. My next one will likely be an FITech with an in tank pump on my F100.
Of course this one could be completely different than a FAST in programming and tuning, but leery of diving into something nobody is using yet and paying more money for it.
One thing I tend to preach, look close before you start the conversion on where you plan to put the coolant sensor. I don't love how I would have to do it on an RPM, no real nice area to add a bung, and I don't like the idea of losing my heater or putting my gauge on the cold side of the thermostat. However, many do, and every manifold is different. My Victor had plenty of room to add a bung next to the temp gauge sender.