I read this ST novel years ago. It lends itself to the premise of Kirk vs the Federation:
http://en.wikipedia.org/wiki/The_Return_(Star_Trek)
I love the premise of a resurrected Kirk following the Generations *cough* movie. His body was stolen from Veridian III and resurrected by the Romulans, who have formed an alliance of convenience with the Borg in this story. The story has Spock, Admiral McCoy and characters from DS9 as well.
It touches on the subject of V'Ger (Voyager 6) and brings to light that it was modified by the Borg.
I'd have paid to see that story brought to the big screen. It seems the best stories are destined to be novels and never make it to the big screen.