Good questions
1. The VEMS is capable of tracking ignition timing to well above 12k rpm, there is no actual run time difference when it comes to timing sparks, timing fuel or any other calculations.
2. There is no MAF support, I have tuned 100+ engines without MAF and a few with and I cannot see the benefit at all when it comes to standalone tuning, also the ecu has wideband closed loop so itīll keep your lambda on target. You can tune a VE table in less then 30 minutes on the road to almost perfection. The VE table output is sent to the Lambda target output table which modifies the output to correctly adjust the "load" for lambda targeting as in a load based system.
3. The auxiliary connector comes with 2 high power outputs and a relay output so possibly it could (Iīll verify). Sequential injection is good for emissions and some economy and a little better throttle response (meaning less fuel to get the best possible throttle response) which anyway is always poor on a single throttle body system anyway. The injection sequencing on a 4cyl semi sequential is actually good since the injection is always on a closed valve for optimum vaporization.
4. as in 3,
http://www.vems.hu/files/M50Turbo/scn011.pdf , you have some inputs and outputs to play with already.