She came back one more time in Infinite Crisis to give "our" Wondy a ride to Earth-2 in her invisible WWII-era plane. While lecturing her on the "You're not human enough!" BS that Geoff Johns foisted on her.
Honestly, I love Johns and I loved Infinite Crisis, but the man just does not get Wonder Woman.
Anyway, after that she faded away into the aether and is now presumably dead dead, unless she was copied on the "new" Earth-2 like Power Girl was.