The Star Trek franchise has been alive for 60 years and counting, which means it has had plenty of time to fill in any plot holes and answer any dangling questions. Star Trek has solved many mysteries over the years, from Enterprise finally explaining why the Klingons lacked their forehead ridges in The Original Series to Strange New Worlds confirming the old fan theory that Trelane has been a Q all along.
On the other hand, it's not the duty of each new Trek series to simply settle unfinished business, so a number of mysteries are yet to be solved. Some might involve lingering questions from episodes that never got a sequel, or plot threads that ended abruptly when a show was canceled. Others concern characters who just upped and vanished from the franchise and were never seen again. Fingers crossed the following seven mysteries will finally be resolved by the time Star Trek reaches its 120th anniversary.
Enterprise played with its nature as a prequel from the off. As featured in the show's debut season, the Temporal Cold War arc established that various factions were attempting to alter the Star Trek timeline. The big brain moving all the pieces around the quantum chess board was a mysterious individual with the nickname 'Future Guy'. He offered cryptic advice to either the Suliban or Captain Archer, depending on what best aided his enigmatic aims at the time.
Despite appearing as early as Enterprise's pilot episode, "Broken Bow," the show never revealed Future Guy's true identity, as he was only ever depicted as a shadowy hologram in a high-collared uniform (like Star Wars' Emperor Palpatine only with better tailoring). Obviously, the writers planned to fully explain who Future Guy was eventually, but this aborted story arc was one of the many frustrations caused by Enterprise's cancellation after just four seasons.
Thankfully, we at least know what the creative team's intentions were for this character. Enterprise co-creator Brannon Braga has confirmed in the years since that Future Guy was an older version of Jonathan Archer, who hails from a dystopian timeline and is working to manipulate his younger self and his enemies to correct history. Those who like this explanation can consider this canon, but those who don't can ignore it and keep coming up with their own theories.
After her introduction in The Wrath of Khan, the half-Vulcan, half-Romulan Saavik became a much-loved part of the Enterprise crew, even with Robin Curtis replacing original actor Kirstie Alley for The Search for Spock and The Voyage Home. Sadly, Star Trek IV proved to be her final appearance in the franchise to date; Saavik only features in the very beginning of the film before Kirk and company leave her behind on Vulcan.
On screen, there is no given explanation for why Saavik has to part ways with the crew, leaving her complete absence from the franchise's future a frustrating open-end. The writers had planned a shocking explanation for Saavik's absence: she was pregnant with Spock's child, following the younger, resurrected Spock going through Pon farr in Star Trek III. Leonard Nimoy objected to the idea of Spock becoming a father, however, and so the writers hastily removed the explanation from the script.
Decades later, Curtis performed the cut scene on a podcast, which allowed fans a glimpse at how Saavik's original exit from the franchise was going to look. In the finished film, Saavik may disappear without any fanfare, but the deleted dialog would have had huge repercussions for both Spock's character and Trek canon if it made it into the movie.
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