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If I'm honest, the only thing I have found to cause issues mid flash is plugging something into the power sockets/cigarette lighter.
I can confirm, on the push button models, that so long as the key is present to allow you to cycle the modes you can do what you want with the key once the ignition is on. I have walked away with it in my pocket while the laptop is in the car without a problem. The ECU does not require it's presence when on, just as it can run without the key in the car.
Opening and closing doors also doesn't seem to be an issue, but is definitely worth avoiding.
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