The title parodies that of the Back to the Future films. The alternative timeline plot is taken from the the second Back to the Future film. It was also parodied in "Meet the Quagmires".
Future Joe resembles The Terminator and the crushing of a skull underfoot is a notable scene from the film. His body below the head is a copy of that of IG-88, the assassin droid bounty hunter from Star Wars.
Stewie's old Japanese children's books are parodies of Everybody Poops ("You Poop Now"), Horton Hears a Who ("Horton Hears a Suicide"), and The Little Engine That Could ("The Little Engine That Will or Get Great Shame").
The scene where a number of Brians and Stewies appear is reminiscent of the Star Trek: The Next Generation episode "Parallels", where a number of Enterprises appear when the space-time continuum fractures.
The basic plot is similar to the Deep Space Nine/original Star Trek crossover, "Trials and Tribble-ations", in which characters from the latter series were digitally spliced into footage of the "The Trouble With Tribbles" episode in the original Star Trek series. Both involved time-travel and the present-day travelers interacting with people in the past. The DVD featurette "Looking Back to the Pilot" acknowledges the Deep Space Nine episode as the primary influence for "Back to the Pilot".