This is my pin maps for the for INs and Outs. And this works - I've had this setup in the car for close to two years.
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You have some issues in your diagram for the boost control. The Mac Valves are 'ground switched' OUTPUTS and the dome sensor is a 5V INPUT. I have my dome sensor running through the In/Out box (add on), but you have plenty of ins and outs to do what you want to do, but you're left without many spare ins and outs. That's the reason I bought the in/out box that allows for 8 additional ins and 8 additional outs.
Have you followed any of Devin Vanderhoof's videos? He lays this out pretty well. He also describes how to test each function (boost control and t-brake).
This appears pretty confusing at 1st, at least it was for me coming from the MegaSquirt world. But being able to stack ins and outs is unbelievable feature. Do yourself a favor and leave the access to the in/out plug in the open for easy access. Then do a bunch of testing before you tuck all of the wiring away. Of course this makes for a messy wiring setup (for a short time) until you're more confident in the tuning and wiring - leave it accessible so that you can change it as it goes.
Having a Master Enable input is EXTREMELY convenient, and I also have a Mac valve switch that enables the 12v+ to the Mac valves via an output to trigger the 12v+ mac valve relay. But you can do this with a manual switch as well. I can attach a pinout of my I/O box also if you'd like. The only item that I don't run through the Holley is my line lock, but I'm considering doing that as well so I can limit RPM's via a dwell cut table so that I can keep the rpm's below 6K when the line lock is enabled - presently I have to watch the rpm's when completing a burnout.