Sorry for the long delay, shakey... I was unavoidably unavailable
Anyway, it seems the map has flourished in my absence. Your numbers for the map are doubtless correct, I was afraid that I might have counted a couple of bogus regions when I assumed that Tokyo U and the Tokyo Dome also had a pop. region to go with them instead of being single regions in their own right. With those fake 2 regions gone from my count, my numbers would match up with yours.
Going the 'Activation' route should make the gameplay easy to balance- you were wise in your consideration of the 1st-turn advantage in 1v1 games.
As for the 3-regions bonuses, I have no strong opinion one way or the other at the moment as to using starting positions vs. neutrals. Maybe if I crunched some numbers to see how it affected deployments... Anyway, the consolidation of the 2-region bonus areas into 3-region areas is a big improvement, and the even bonus across the board appears to me a Good Thing.
I wouldn't make the landmark neutral values too high, perhaps no higher than 5. Anything higher and the bonus for multiple landmarks will effectively be ignored, as well as possibly the pop bonuses until late game (unless that's a desirable outcome, in which case 6-8 neutrals should do).
As for clarity, this map is a 100 times better.
I think you can use more color in the legend to help out a bit, using the individual shades of yellow, blue or magenta for each bonus area with its corresponding listing in the legend. Also, the shade used for the 'pop-bonus only' suburban areas I feel should be as distinct as possible while still being bluish. That way, when it gets mentioned in the legend, the color can be more recognizable and easier to match with regions on the map.
I agree with Tack that the legend that describes the Landmark and Parks bonuses needs to be separated more from the map proper... it blends in too much right now.
As for the value of the various bonuses areas, and pop regions, I'm fairly satisfied that while the Central Tokyo region clearly has the biggest potential, that fact is balanced by the ease with which the Suburban bonus areas can be snatched up in the early game. Considering how wide open most of the bonus areas are on this map, the Suburban bonus areas might actually be preferred as they are all around the edges of the map. However, it couldn't hurt to do some digging to break down exactly how much each bonus area earns if a landmark is held and the pop bonus is active. Obviously, the Central Tokyo bonus areas will get the biggest boost, since they have the most regions.
Thanks for putting your numbers on the first post shakey, this map thread is aces.
-- Marshal Ney