The flagship campaign of Wing Commander Saga, "The Darkest Dawn" * begins right before Wing Commander 3 and concludes with the ending of the Terran-Kilrathi War (whether or not the Terrans win depends on you).
It has been six months since the Battle of Earth, and inspite of new fighters, carriers, and technology joining the Fleet, the war effort is not going well. Everyday, more news of fresh defeats and losses make their way around the Confederation Forward Fleet, who have to face the possiblity that they will not be the ultimate victors.
You are based on the TCS Hermes, one of the handful of large carriers left on the front line. You play the role of Second Lieutenant David Markham, a pilot recently transferred to the Hermes.
Markham is no different from the other young idealistic rookies who are determined to make a name for themselves. Already having your metal tested and your outlook hardened by your time on the Wellington, you still dream of flying heroic strike missions deep into the heart of the Kilrathi Empire, finally bringing this decades long conflict to an end.
But all hopes and dreams are squashed by the burden of reality. In every system, the Confederation forces are badly outnumbered and outgunned. For every Kilrathi fighter and warship destroyed, 10 others takes their place. Comms from HQ order the abandonment of civilian colonies which the Confederation no longer has any strength to defend. The retreat is downward spiral leading to the final stand at Earth. It won't be very long till Markham experiences what the true nature War really is ...