在尼比鲁星球探查期间，企业号舰长柯克（克里斯·派恩Chris Pine 饰）为营救史波克（扎克瑞·昆图 Zachary Quinto 饰）采取了胆大妄为的举动，几乎危及全舰队员的生命，他也为此付出代价。不久，柯克官复原职，而伦敦发生一起死亡超过四十人的恐怖袭击事件。该事件的始作俑者约翰·哈里森（本尼迪克特·康伯巴奇 Benedict Cumberbatch 饰）正来自联盟内部。此后他驾驶飞机袭击了高层会议，柯克最为敬重的派克将军不幸遇难。为了阻止哈里森的外逃阴谋，柯克重新率领企业号启程追击。危机重重的旅途，他和舰员、朋友之间的信任也受到巨大考验。 　　当他们最终找到哈里森，才终于知晓他的真实身份，以及伦敦袭击事件背后的阴谋和黑幕……When the USS Enterprise crew is called back home, they find an unstoppable force of terror from within their own organization has detonated the fleet and everything it stands for, leaving our world in a state of crisis. With a personal score to settle, Captain Kirk leads a manhunt to a war-zone world to capture a one-man weapon of mass destruction. As our space heroes are propelled into an epic chess game of life and death, love will be challenged, friendships will be torn apart, and sacrifices must be made for the only family Kirk has left: his crew.