About staged injection. In my opinion primary injectors (stock position) is useless together with secondaries at high rpm and I didn't found function to switch primaries off completely. The only way I now is to use dual table for two banks of injectors. Primaries until 4000rpm and after that secondaries. But not shure about that: stock primaries and secondaries I'm planing 800cc Siemens-deka, low resistance and E85 fuel. Also thinking about cheap and nice composite airbox with posibility to instal secondaries injectors inside.
Yeah I think primaries always fire and then secondaries start injecting on top of them when certain parameters are met.
Ideal way would be to completely switch over from primaries to secondaries. I have been thinking using relay one output from mega to control solid state relay that would switch between banks, that way only one bank would fire at any given time. Not sure if the switchover from bank to another is a problem, leading to a very short (maybe few milliseconds) lean or rich mixture.
Problem is that I would need 2 x 4 identically sized injectors with flow rate around 500- 550 ccm.
By the way you can reduce pressure fluctuation for MAP sensor by installing restrictor, or use it for atmospheric pressure and alphaN 
MAP signal is averaged from all four intakes (it is taken from idle/vacuum rail) and there is quite bit of volume in there so maybe the pulses are not that strong. But restrictor will surely help if there is need for more filtering

I went to scrapyard yesterday and I purchased some 50 mm diameter aluminium tube for intake trumpets. Also sourced some 16/19/23 mm steel tube for new vacuum and fuel rails. I have whole winter time to build so why not do it properly...
Con rods should be FINALLY ready next week, then I can start measuring bearing clearances with old bearings and then buy new ones. Also ordered some parts for timing case, timing chain guides and oil pan.