From what I've heard, the Phoenix/Edgeworth rivalry is the centerpoint of that series while Freeman/Breen is a mere hero/villain relationship, in a game where you can ignore the plot no less.
There are three more big reasons why I'm sticking with Phoenix > Gordon (in fact, I'm sure of it and am even banking on it in my battle bracket, which I am attempting for the first time):
-I picked Half-Life 2 > Metroid Prime last year and look how well that worked out.
-http://www.gamesradar.com/top-7-bestest-frenemies/
Look who's #1.
-Half-Life 2 has monster critical accliam, and so does Freeman himself. But no one gives a darn about Gordon Freeman vs. Dr. Breen. Half-Life 2 is more like humanity vs. the Combine.
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Currently Playing - StarCraft: Brood War