In reply to drunken monkey: The Wakhan benefits by being geographically (and socially) isolated from the rest of Badakhshan. South and West of Ishkashem is not somewhere I'd care to visit at present but at present there have been no incidents east of Ishkashem. It would be very difficult for either insurgents or criminal gangs to operate there given the nature of the terrain- not just the physical difficulty of it but the fact that the only possible routes are very few and highly visible. Its effectively a single massive valley with a few passes in and out. At present it seems there is no local base of support for insurgents or kidnappers (unlike many other areas) and nowhere for them to hide. The area has been seeing approx 100+ tourists/bikers/climbers a year for a while now (give or take a few).
As the OP said Adab's company Adventure Wakhan
http://www.adventurewakhan.com/# facilitates visits and most people come in at Ishkashem from Tajikistan (most of us can't afford our own plane from Kabul and the overland journey would be hazardous although I know a few young eastern European/Russian backpackers have been doing it quietly).
This was Kate Humble's second visit to the Wakhan I believe. I believe she went with Wild Frontiers to Lake Chaqmaqtin in 2009. Wild Frontiers
http://www.wildfrontierstravel.com/us/world-regions/central-asia/afghanista... and Secret Compass
http://www.secretcompass.com/expeditions-2012/afghanistan/ are both offering treks to the region.