People are getting too up-in-arms over her characterization when there's actually nothing wrong with it outside of the execution at times (I blame this largely on poor writing.)
Everyone expecting Samus to be a stoic and heartless killing machine have not even caught that she does show emotional signs within her more muted games in facial gestures or general actions (see: that Prime 2 scene I keep yapping about as a more in your face version of this.)
The game's problem, again writing, was that it pretty much shoved it full force into the player's face and it got rather irritating at times, and I'm not even talking Ridley scene, which I thought was perfectly fine given her backstory and thoughts, which she even mentions early on in the very game itself.
You done good, Hypershell. I also agree with the Space Pirate inconsistencies because if they need Mother Brain to be brilliant and organized and Mother Brain got zapped into oblivion... how the hell did they restructure for Super Metroid?
And now people know why Prime 3's teaser that Mother Brain was stolen GF technology makes more sense, at least as to why she came back in Super Metroid.
Here's hoping that, if we get another story-driven Metroid (probably not likely... I've been hearing this game has been getting a royal flogging at retail) they at least hire a writing team that can at least make sense of the Metroid-verse instead of Sakamoto's current overly-ham fisted and plothole filled fanfiction.