| Are You There God? It's Me, Jesus
- This is the first episode where Mary Kay Bergman does not provide voices to the female characters because of her death.
- This is currently the only episode to focus on New Year's Eve.
- Jesus' house number is 80122. This is also the zip code for Littleton, Colorado, where Eric Stough, one of the producers and the episode's director, grew up in.
- God's physical appearance is roughly equivalent to the ancient Egyptian "Ammut, the Devourer" (a chimeric, female personification of divine retribution).
- Cartman, Kenny and Kyle have their club for "mature people" in Cartman's clubhouse which he and Kenny built in "Clubhouses".
- The Chinese kids with a dodgeball expertise can be seen in a news clip from China. They first appear in "Conjoined Fetus Lady".
- Kenny's bathroom is very clean and resembles Cartman's, but later in "Cartman Joins NAMBLA", his bathroom is very dirty and unkempt because of his house's poor and unsanitary conditions
- In one scene the citizens of South Park wait to see Jesus come out of his house and whether or not he will be scared of his shadow. This is parodies Groundhog Day in which if Jesus is not scared of his shadow, the next one thousand years will be filled with peace and love.
- At the very beginning, the boys walk by window with a guy in a long robe, holding a scythe which has "1999" written on it. It is Father Time holding a Deathlike scythe, a small homage to the former belief that the world would end in 2000.
- Due to the fast production of this episode (creators Trey Parker and Matt Stone wanted to celebrate New Year's Eve with their families), several elements from previous episodes were recycled in this one, including:
- Jesus' photo of himself and Santa singing their Christmas debut concert together.
- The X-ray image from the opening number of the previous episode "Mr. Hankey's Christmas Classics" (shown in this episode on the evening news).
- The brief news clip of Jakov (from the episode "Jakovasaurs") in France.
- Fast episode productions would become a positive hallmark of the series, as Matt and Trey would later take advantage of this technique to create episodes with up-to-the-minute cultural references or parodies. Because this episode does deal with a current event, namely the millennium, it could be argued that this was the first of South Park's "currently relevant" episodes.
- After Stan takes a whole bottle of hormones, he grow breasts shortly after. This condition is known as Gynaecomastia. In reality it cannot occur if one develops facial hair prematurely, because gynaecomastia is a side effect from having a lack of testosterone.
- When Jesus is watching the news about the upcoming concert, all of the colors in the shot are messed up, an example being that everyone's faces are yellow. The next time the TV is shown, the colors are corrected. This happens again when Rod Stewart is performing.
- The stage in Las Vegas is briefly shown with snow, mountains, and pine trees in the background when Jesus approaches the mic.
Kenny believes that he had his period because his anus bled, so plugged a tampons up his rectum. Since he kept it in there for several days, he eventually bursts from inside out.