There's a similar project going on right here,
check it out. It's for a MAF, but BMWMan91 would know exactly what sort of data output you'd need. A MAP would work really well with a Megasquirt, VEMS or other standalone.
IMHO, unless you're tuning the motor or need a rebuilt AFM ($$) there isn't a really good reason to replace the stock unit. The flapper AFM isn't a bad choice - durable and not much of a restriction. I'll bet a well-suited MAF would work out really well.