That's an odd horror story that I've never heard.
Plus, you couldn't possibly mix them up. Your plug either fits or it doesn't.
And if you're using a power supply, why would you keep the battery in? Most people just take them out so they have a battery to use later, just in case.
Oh, and on a side note... sonicvi, all of the positive-tip Micro series pedals (Q-Tron+, Polyphase, etc.) use a 2.5mm barrel jack, so the Boss-style (2.1mm) barrel wouldn't fit anyway.
EHX's approach to power supplies is pretty foolproof, IMO, with some minor exceptions.