Definitely and in the end it could be said that Brax altered her memories again, to say that she left The Doctor after The events of At Childhood's End
Also Assassins suggests Brax did more than alter her memories. There, if I remember correctly, Narvin claims he’s unable to track down Ace or Brax in part because Brax has messed around with her timeline to cover his tracks, altering things as far back as her travels with the Doctor. So it could be Brax arranged the quantum anvil incident to un-do Ace’s time on Gallifrey, thus removing any links to his mission to the Obscura and his subsequent flight from the War.
This, very much this.
NARVIN: Braxiatel more than covered his tracks. He’s left multiple false trails, all leading precisely nowhere. I can’t even track Ace's history from her biodata anymore. The time trace is blurred and contradictory all the way back to her departure from the Doctor.
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