Even Samus has her blonde moments.
hmmm, who would call her "Hunter" besides the space pirates? I don't think they'd want to blow up their own ship. Is that mother brain? crap, i remember you said these voices could be differentiated by the font, but i forgot what font goes to what character <goes to check the archives> Ah yes, that is mother brain...wait isn't it on the ship? bah, it probably has a personal ejection pod or something like that.
her origional sprites had GREEN hair. she probably just bleaches it.
or her PUNK phase
There are times when characters with green hair in anime are refered to as having blond hair. And Terra/Tina from Final Fantasy VI is blond in concept art and in the CGI FMV with the PSX version of the game.
And it is a wierd thing for Mother Brain to want to destroy the space pirates ship, unless they realise they can't control the SA-X's, got all the use out of them (research) or extracting powersuite parts/components or REALLY want to kill Samus.
oh yeah! the green hair is a result of the "JUSTIN BAILEY" code from the original metroid game (it also works on the version you can unlock when you play zero mission) you start the game in a later level, with all powers up to the wave beam, and Samus isn't wearing the chozo armor but something that looks more like her zero suit. the only difference is her hair is green and the suit is...pink i think? its been a while since I did it. I always figured those colors were a result of the original NES not being able to display as many colors as we're used to today.