I suspect that any individual that hasn't started a large single couldn't steal it and that any thief that was looking to resell the machine or the parts would know that both are worthless to any body but the true faithful who, in all likelihood wouldn't purchase suspect parts. Take a Bonneville or, virtually, any Harley and you need the steering lock (Harley, IIRC, had provisions for a padlock), stout cable lock, an armed security detail, and, as a last resort to ultimate justice, a few grams of C-4...
Regarding the matched key. When you extract the cylinder, and if the ignition key fits you will notice the "pins" are not at even height as they were with the the key supplied with the cylinder. At that point file the "pins" to even height based on the measurements you took with the supplied key and you should be good to go.
Best.