First:
Wow. That's weird. I wish that I had been at the meeting yesterday (I was doing taxes, and getting #1 son moved into a PSU dorm, and you know how regularly I make it anyway). I might have been able to offer more deep insight.
Second:
There's been mucho discussion about the inadvisability of disconnecting main power while the motor is running -- it can cause ESCs to die early deaths, among other things. OTOH, in my opinion, if it's a choice between frying an ESC and torching an entire plane -- yank the plug! Doing so when the motor isn't spinning is as safe as houses.
Third:
An external arming switch, or a battery disconnect that can be accessed when the prop is spinning, is a good thing. I'm comfortable with this being done after taking off a hatch, particularly if the hatch can be taken off while the prop is spinning.
Fourth:
If you review Brett Buck's proposed rule for electrics, it basically states that you make sure that someone's holding on to the plane any time the battery is connected to the ESC. In the case you mention, the sequence on a timer failing to start should have been that the flier puts down the handle and walks toward the airplane. Then the helper hangs on until (a) he is directed to let go by the pilot, and (b) he has verified that the pilot has a good grip on the plane. Under no circumstances should both folks be standing there looking at an un-restrained plane, scratching their heads and waiting for it to take off.
Fifth:
There's something odd going on with the setup. While disconnecting the main battery lead is pretty harsh, unplugging the timer from the ESC should be safe as houses, and unless the ESC is really, severely malfunctioning, should result in no damage and a motor that's not spinning. I think if I were having those problems I'd leave my ESC to timer wires dangling outside the plane, either by poking them out of the hatch, or leaving the hatch off.