Well, a remap's going to put the turbo under more pressure (its more than just advancing ignition timings on a TD as far as I understand), so yes, it is likely to affect component longevity.
What's unknown is to what extent. It's difficult to have controlled tests on remapped cars to determine the extent of component wear. You would need a very large sample of the same car, the same type of roads, same type of driving style, sam climate, same fuel type etc, and even then its difficult to show cause and effect due to so many different variables.
Knocking 10% off the life of a component that lasts 200k, is cheap and easy to replace is one thing, but shortening the life of the swirl flaps so that they fail at 100k with the result that they're sucked into the engine and destroying it, is another.
Personally, I wouldn't dream of trying to remap an engine that is known to have a significantly higher proportion of turbo failures compared to the norm.
Not sure how much preventative maintenance you can do on this and at what cost. Can't be bothered to trawl through 60+ pages so let me know if you find out the cost of replacing swirl flaps, inlet manifold, etc and whether this is a guranteed preventative measure:-
http://www.bmwland.co.uk/talker/viewtopic.php?t=53451