User blog comment:D. Cello/Assassin's Creed: Revelations (PC) - Official Assassin's Creed Wiki Review/@comment-187.105.170.237-20111221184831/@comment-1153722-20111221210944

As I said, the Codex never said that Altaïr's Apple ever was hidden there, just that he intended to do it. And now, we know he didn't. The Apple on Cyprus was a different one. Either there coincidentally was another Apple on the island, or an Apple was moved there some time between 1257 and 1488 without neither Altaïr or Ezio knowing. The Templars, having read the Codex, thought Altaïr's Apple was on Cyprus, and there indeed was an Apple - but just not Altaïr's.

The Codex confirms that Altaïr still had the Apple with him right before his death, so the Codex is not any ground to stand on for your sake.