The hit drama was voted best syndicated/cable TV series at the prestigious ceremony, which recognises achievement in genres such as sci-fi and horror.
Cranston was named best actor on TV while his partner in crime Paul picked up a best supporting actor trophy, paving the way for success at the upcoming Emmy Awards, where they are both nominated for top prizes.
In the movie categories, Rise of the Planet of the Apes was the big winner, taking home honours for best sci-fi film, best special effects and best supporting actor for Andy Serkis, who played the chimp Caesar.
J.J. Abrams was crowned best director for Super 8, which also received Saturns for best music (Michael Giacchino) and best performance by a younger actor (Joel Courtney).
Harry Potter and the Deathly Hallows: Part 2 was awarded best fantasy film, The Girl With the Dragon Tattoo landed best horror thriller and Mission: Impossible - Ghost Protocol received best action/adventure film.
Kirsten Dunst nabbed best actress for her performance in Melancholia, while Michael Shannon won the male equivalent for Take Shelter.
Puss in Boots was this year's best animated film while The Skin I Live In scooped the Saturn for best international film.