It's clearer why it sucks now at least.
I knew something was up in ME2, when instead of continuing a Great Romance, I was blown off by my choice in ME1...and not in a good way.
There was no overarching theme. It had great elements, and I think a decent theme can extrapolated from what was given, but what they chose was still just too random. It could have just as easily been revealed that the Trix Rabbit was behind it all. 'If humanoid life wont let me have My Cereal, that has My freakin' name on it, then humanoid life must go!'