I haven't played the game but I've followed the story line.

Animatrix, Matrix, Reloaded, Revolutions and though one of the movies clearly better than the rest (IMHO) but the whole story was great. /Spoiler on I mourned Trinity and Neo but hey in an epic battle that big everybody isn't going to live happily ever after. /Spoiler off.

Instead of looking at the movies as sequels, look at them as chapters in a story.