I always wanted to do that with the Darkstryder campaign, which is basically the setup for a Voyager campaign in Star Wars.I sorta did that. I didn't so much break canon as I put the players into a bubble that was outside of canon.
I ran a FFG Star Wars game that was heavily inspired by the plot of Star Trek Voyager:
The campaign started with the players (some Empire and some Rebel) being on an imperial ship. Rebel players there to investigate reports of empire activity and possibly sabotage a rumored secret weapon; Empire PCs were there are crew members of the ship there to study a space artifact and see if it could be leveraged as a weapon.
During an ensuing battle the artifact activated and teleported the ship to a part of the galaxy that was distant from the usual Star Wars stuff.
For the players, they got to experience being in control of an imperial battleship and trying to figure out how to work together to get home while also navigating internal conflicts among two groups forced to work together.
For me as a GM, I was able to incorporate elements of other sci-fi franchises (i.e. Halo, Alien, Star Trek).

The DarkStryder Campaign
The DarkStryder Campaign is the first installment in The DarkStryder Campaign series, a supplement for Star Wars: The Roleplaying Game published by West End Games. Released on July 17, 1995, this boxed set includes a 14-page original story by Timothy Zahn titled The Saga Begins. Set in the early...