The final of the Star Trek films to feature the entire original cast, Star Trek VI draws many parallels to the end of the Cold War between the United States (represented here by the Federation) and the Soviet Union (the big bad Klingons).  An explosion occurs on the Klingon moon known as Praxis (an allusion to the nuclear disaster of Chernobyl), which makes the Klingon race face possible extinction, as their way of life crumbles, rendering them a superpower no longer (akin to the breakup of the USSR).  The crew of the Enterprise is called upon to be an escort for Klingon Chancellor Gorkon (Gorbachev wannabe) to a crucial assembly on Earth. 
It's hard for Kirk and co. to trust the Klingons after so many years of fighting them, so when a pair of photon torpedoes are shot into the Klingon ship and two men in Federation gear assassinate many onboard, all fingers point to the only logical culprits, the Enterprise crew.  Kirk and McCoy (who tried in vain to save Gorkon) are put on trial for the disaster, leaving the remaining crew with little time to coordinate an effort to clear their names and secure their release before whatever faction responsible commits more assassinations in response to the peace process.