Unfortunately I don't have the comic on my computer anymore, but I did manage to find information on it.
From Wikipedia:
"Epic Illustrated
The anthology comics-magazine Epic Illustrated #26-34 (Oct. 1984 - Feb. 1986) published the first nine serialized installments of a projected 10-part tale, "The Last Galactus Story", by writer-penciler John Byrne and inker Terry Austin. Each ran six pages, with the exception of part eight, which ran 12 pages. The magazine was canceled at this point, leaving the story unfinished.
Set 100,000,000 years in the future, Galactus devours a now uninhabited Earth. Accompanied by Nova, Galactus follows the trail of destroyed galaxies to the core of the Milky Way. Byrne wrote on his website that the story's conclusion involved Galactus combating a rogue Watcher until the death of the universe. When only Galactus and his herald, Nova, remain, Galactus cracks open his armor, releasing a new Big Bang. With the end of Galactus and the birth of a new universe, Nova is transformed into the Galactus for the new universe."
I eventually found a site with the comic,
http://www.geocities.com/lastgalactusstory, which was working but then it started giving me some server error. Hopefully you are lucky enough to find it through torrents like I once did.
Oh and might I add that the first written ending is the ending I accept. The second ending ends the same way except the surviving character is someone you would least expect to be chosen.