Credit for the original pictures go to tdi rs (Simon Cooper) who modified his TDI pistons way back in 2002. Now you know who did it first.
The full thread is here:
http://forums.tdiclub.com/showthread.php?t=16470
The valve relief pockets highlighted in green are OK to deepen a bit; as you can see from the next picture, I believe 1mm still leaves sufficient meat around the critical bowl lip area. Do NOT, however, enlarge the diameter of the reliefs. This cuts into squish area, which is basically the entire area highlighted in translucent red (minus the bowl of course). You have no good reason to do it unless you are enlarging the valves and need to clear them. And that also means, do NOT touch any of the red area (that's why I made it red).

If you think squish is not important, consider why VW would go to the trouble of having THREE gasket thicknesses only 0.08 mm (.0031") difference between each to maintain the proper squish clearance.
Plan view showing the machining TDI RS had made. I would do recommend pretty much exactly as he has done. IMO, I don't think the bowl lip should be completely eliminated, resulting in the straight up "W" appearance of the bowl when looked in section like #5 in the figure below. I think there should be some lip left, as TDI RS has done.
In this excellent picture of the TDI piston in section (thanks for sacrificing a piston in the name of science

), I've highlighted in dashed lines roughly how the original lip would have looked, but it is greatly exaggerated... what I'm trying to show here is that if you MUST muck around with machining the bowl to get more volume, roughly follow the proportions of the existing bowl, although the width (breadth) can be widened relative to increasing the depth by approx. a 2:1 ratio particularly around the 8 o'clock position. Try to avoid increasing the depth of the bowl; make most of the volume increase through an increase in the width, particularly around the 8 o'clock quadrant, because that is where the fuel spray is aimed at. The key is preventing impingement of the fuel spray -- under momentum due to higher velocity (injection pressure from upgraded pump) and higher mass (larger droplet size due to larger nozzle holes).
I've only sketched one-half of the section because it's exceptionally hard to get it right using the rudimentary drawing tools in PowerPoint, which I used to fool around with these pics.
The centre hump should be left alone, with only machining clean-up. It does little in the combustion process, and significantly cutting into it will result in a low-swirl velocity in that area that will hamper mixing. and combustion.
View of TDI RS's pistons in their home. Looks great!

The only think I would add to that is to do a thermal barrier coating to the pistons. and (at least exhaust) valves.
Another view.