Saying the Skyward Sword becomes the Master Sword did not by definition make it an Ocarina prequel. With the Master Sword being lost below the Great Sea within Ganon's stone encased body, a retrieval, or recreation of the blade of evil's bane was also a possibility. As such, there were two possibly placements. Though confirmed to be true now, immediately stating it as a pre-Ocarina title was be getting ahead of oneself.
Either way, with the pre-Ocarina placement now undeniably confirmed, one can't help but hope for further exploration of the many concepts only vaguely alluded to in Ocarina and Twilight, much like how Ocarina was based on the classic story of Ganon being sealed into the Dark World once Sacred Realm.