so is this your first installation of it? malossi is usually pretty decent quality so id be suprised if it came to you messed up. if you havent put miles on it to potentially damage it i would be more inclined to say install error. sorry, i hate when people tell me that too, and you seem pretty confident in your work.
ive had trouble with my moby cdi too (the treats version, of much lower quality) and the best advice i can give you is to get the resistance readings of all your coils (mainly your primary) on a _functioning_ stator plate. someone else on the forums may be able to grab them for you. then, in times like this, you can compare your coils to the functioning ones and get a good idea if theyre fried or not. pretty much the only thing i can think of to try to investigate black magic box situations like this.
on my cdi the functioning coils were 350 ohms and when i blew them they went down to 150. so the difference was night and day for me, maybe it will be for you too.