RonnieStein drops The Flash back on the ground at the base of a bridge in episode 1x13 “The Nuclear Man”.
H.R. writes a fictionalized version of the team's busting of a gun sale with himself as the hero in episode 3x11 “Dead or Alive”.
Deep Throat calls Mulder to talk about the Litchfield program in episode 1x11 “Eve”.
Clive and Liv investigate the boat where the murders occurred in episode 2x12 “Physician, Heal Thy Selfie”. Dolly Durkins posts on Sloane Mills's social media to keep up the ruse while Benny prepares the port-a-potty truck in episode 5x09 “The Fresh Princess”. Dolly Durkins unpacks heavy weapons sent by the general and later the Deadenders set an ambush for Major's team in episode 5x12 “Bye, Zombies”.
Tom stops Colonel Denila as he attempts to escape the city in his boat in episode 1x05 “Another Broken Morning”.