I've done some stained glass in the past so fire away and I'll see if I can answer. If not, I think I know a man who can. Also have a look at the message board of http://www.stainedglassnews.co.uk/
. There haven't been many posts of late but you may glean something there. For stained glass software, see www.dfly.com
There is a 30 day free trial available foryou to play with if you want. I've had the software for years, the Professional Plus version. Here's a picture of a stained glass cartoon I designed from a photo of the head of a friend of my daughter's.
Never got around to making the panel though as it still needs a bit of tinkering to make some of the pieces cuttable.