Yeah this is a very good story, there are errors, but for making a new chapter every 1-2 days, thats amazing.I wish I was that creative.  You are basically following what I figured what would happen after Halo 3(Elite/Human Alliance,  combined technologies, etc.)  The one thing that may be able to be incorporated into this story is the stronger fusion reactors now, because I can't remember where I read it, but it said in one of the Halo books that the Humans' fusion technology was superior to the Covenant's.  The only reason they had more power is because of how many reactors they had on one ship.  The Unyielding Hierophant had 512 fusion reactors I believe?  You could also use the NOVAs somewhere in the story. That would be the biggest explosion in any movie ever made if they made Ghosts of Onyx into a movie :P  That and maybe they could have used one of those Super Mac Guns on one of our capital ships.  Anways, I will stop rambling now.  Oh, and was Muerte completely destroyed, as in asteroids?, or was it just glassed like a normal Covenant weapon?  Don't tell me if ur going to answer it in another chapter, no spoilers plox. :P

Sorry for the Wall of Text XD