Ganon's Death

^The sword also begins to glow. If you want to try it out don't L target. It happened to me once on a fluke and then when I tried to repeat it for 20 minutes and it never happened. However I had been L targeting the whole time. If it doesn't work for you try not to L target (no guarantees though)

The execution scar that Ganondorf has in TP apparently cripples his might and makes him far more vulnerable. When he becomes Ganon the scar tears in places and begins bleeding, suggesting that he can't use his power properly. Also, he is vulnerable to the Light Arrows and Master Sword even though he hasn't been stunned beforehand.

I had never looked at it that way. I knew it made him weaker but had not thought that it might diminish his control thus explaining the wild and weakened Ganon form.

^But the Ganon form in TP is unique.

Normally Ganon is just Ganondorf on steroids (to put it smply) but in TP Ganondorf uses the power of the ToP to turn himself into a divine beast when in Twilight like Link.