Well, I saw another guide or two that left out removing the diode/resistor and simply soldered the cr2032 battery holder into place. I decided to do the same and picked up a battery holder from Radio Shack for $1.25. Fortunately it fits perfectly without any modification.
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I tested it out by playing a few sessions of Demon Front, then left the system off for a while. I turned it back on and my high score saves were still there, wooot! I'll try it out on some other games and will report any issues I find (if any).