chip the ecu and pull the eprom ( zif socket of course) each night, really good alarm system, hidden fuel cut out independant of the alarm system. This kind of shit really pisses me off, and makes me thankful to have a garage.

Did you atleast have insurance....I know it's a pain but if your lucky at least the cost of replacing it won't be a big hit. I know when I had my car broken into I was able to get all the stuff replaced plus the cost of install ( I do my own work ) so I was compensated for the hassle.