IMO, lightning is not always going to take the nice, neat path through the car's body. While the car may absorb much of the available energy and damage, any 'leftovers' can be highly dangerous.
With that much current voltage, any resistance in the car's body can result in the substantial voltages appearing across given sections of the car. If you happen to contact the frame at two places at once, you might well get fried. Even if 99.99% of the lightning is going through the metal, 0.01% is going through you - not a good thing!
Try not to be too surprised if the main bolt decides to ignore the car entirely, preferring instead to jump in the open window and say "Hi!"
As David mentions, it might come through the glass. Although a quick net search can't find it, I remember seeing a photograph of lighting damage to a car where the bolt blew a nice hole clean through the front(?) window. (Anyone?)
There is no way to be 100% safe when shooting lightning:
If you're close in, positioning yourself clear of the main precip core helps.
Staying in the car helps quite a lot.
If outside, stand with your feet pressed together and minimize the time spent touching anything else. (You don't want to be holding the shutter open manually!) This will reduce your exposure to differential ground voltages caused by a near miss.
If outside, treat any strike within a mile or so as a message to "GET IN THE CAR, DUMMY!" The zone of lightning activity can and does move about over time. If one bolt strikes close by, more are likely.
Positioning your car a modest distance from any available tall object will help. A streetlight, power lines, building, etc. will all tend to attract any downward wandering lightning in the area. You may actually increase the odds of enjoying a near miss, but you'll be less likely to take a direct hit. I think power lines are great, particularly those with dedicated (well grounded!) lightning protection wires strung above the main conductors. Park roughly halfway between the poles, offset to one side so as to place the wires closer to the storm than you. This will offer maximum lightning protection and also keep you from getting both squashed and fried if the storm manages to knock down a live wire. (Don't do this if high winds threaten to blow the whole mess down on you!)
Do what you can to reduce the odds, then stop worrying and have fun shooting the storm.