I'd like to invite you to my researching community: http://projectpokemon.org/forums because I'm sure that you'd find yourself at home among a good handful of researchers that mainly do Gen IV only stuff.
I got the final format working a little while back (For DPPt and HGSS). http://www.pokesplash.net/alphamap/alphamap.php
I no longer am publicly documenting work though. I will not release AlphaMap for a long while. I am in charge of PPRE, and have made each version since like .07b. That has a good deal of map data wrapped in it if you are interested.
Hey, looks like you have some good work going on with AlphaMap. It seems you're one of the few people around here that actually know what you're doing. I was wondering if you'd be interested in putting our heads together to make some kind of map file specification?