I know its a bit late to respond, but I have been going through the same hoops for a while and getting similarly perplexed.
My electric driver and passenger door windows packed up at the same time. i have an 08 2.5 Transporter, auto box and air conditioning. Everything else worked so I set about looking for a blown fuse. Couldnt find one anywhere. I searched forums including this one to no avail. Im not a complete numpty when it comes to electrickery but this was driving me nuts. I asked people who I thought should know and got advice like "Its probably the ECU" and "you need an auto electrician".
Anyway, today I decided to get it sorted. I got the handbook out first to re confirm the location of all fuse boxes and relevant fuses. In the handbook it said if auto close didnt work then to re set it "close all doors and from outside lock the drivers door with the key and hold the key in the locked position for at least a second".
I then unlocked the door woth the key and got in and tried the windows.
It worked, both windows now operate properly. The solution wasnt clear in the handbook as it is described as re setting the auto close, not re setting the full electric windo functionality!
Anyway, I thought T would post so I may help someone. I have been using the van without the windows working for for about six months, the hot weather finaly pushed me to try again.
Off to buy a lottery ticket now
