* In Issue #1, The Doctor and his friends are riding around in a chariot in ancient Egypt. The Doctor even wears a royal crown for most of the ride, [[NoodleIncident for some unexplained reason]].
* Issue #2: Riker, Doctor Crusher, and Data hear the TARDIS materializing in the Holodeck, but mistake it for an error with the holographic simulation.
** The Doctor meets Lt. Cmdr. Data. HilarityEnsues.
--> '''Doctor:''' An android! A positively splendid android! What do you have in here, a positronic brain? Those can be tricky to untangle, need lots of artificial synapse jumping. Looks like you've got it running very smoothly.\\
'''Data:''' Curious...\\
'''Riker:''' Um...\\
'''Amy:''' Doctor, you're being rude!\\
'''Doctor:''' Top-notch workmanship, I have to say. Did you build him yourself?\\
'''Data:''' Please let go of my head.
** Worf tires of the Doctor's nonstop GibberingGenius tendencies:
--> '''The Doctor''': Very nice, very impressive. Roomy. I like roomy. I like the lines. Very nice use of space.
--> '''Worf''': Will you ''PLEASE'' stop talking!
* Issue #3 has Spock giving a detailed analysis of the jelly baby that the 4th Doctor gives him.
--> '''Spock''': '''Fascinating'''. Gelatin confectionary, dusted with starch, and molded into the shape of small child.
** Upon first meeting him, Kirk and crew assume the 4th Doctor is another member of the Federation research team. [[SureLetsGoWithThat An assumption The Doctor never bothers to correct]].
** When fighting the Cybermen, the Doctor asks Kirk to distract them.
--> '''Kirk''': Distract him. Sure.
** Scotty referring to the Cybermen as "Mechanical Clankers".
* Issue #4, the Doctor, Amy and Rory experiencing the effects of the transporter for the first time.
** Riker's unease with the Doctor taking a sample of dangerous alien technology back to the ''Enterprise''.
--> '''Doctor''': Trust me, Commander! If there's one thing, I'm good at, it's gumming up the works!
--> '''Riker''': I'm getting a sense of that.
* Issue #7, Worf rescues Rory from a squad of Cybermen, and then, holding him aloft by his collar, hands him to Amy.
--> '''Worf''': ''Watch him''.