In "Destructive Testing," after a rather embarrassing defeat, Sergei Kravinoff goes hunting for Spider-Man - using his faithful lion to track locations that the webslinger has been to. What follows is a dialogue-less montage of Sergei and the lion's travels. At the Daily Bugle, we see lots of scared employees - except Jameson, who based on body language, is clearly yelling at the hunter and the lion to get out of his office.
When Jonah starts his smear campaign against Spider-Man, Peter bursts into his office:
Peter: Boss, I'd like a word...
Jonah: How 'bout "scram?" Or two words, "scram kid." Or seventeen! "Get out of my office in two-point-three seconds or I'll staple you to a flagpole!"
Peter: ...H-how did you count so... never mind.
Later in that same confrontation:
Jonah: Soon he'll be caught, jailed, and run out of town!
Peter: (muttering as he stalks off) How can he be jailed and run out of town?
In the Episode Nature vs. Nurture," there's a moment where Spider-Man leaves Tombstone's office and is immediately followed by Venom coming in.
Tombstone: I really should start locking those windows.
After Flint Marko robs a bank for the first time as Sandman, he turns into sand so he can escape through the sewers, then frustratingly realizes that the bulky money bags didn't go down with him.
"Aw man, my money!"
Becomes a Brick Joke in "First Steps" when Sandman gets flushed down a sewer drain without his score of stolen jewels.
"Aw man, my big score!"
In "Group Therapy", while telling the other members of the Sinister Six about Doc Ock's escape plan, Vulture gives Sandman a sandwich. Sandman is unimpressed.
Flash's mom embarrassing him at his party in First Steps. First, she says that Peter and Flash are best friends. Flash protests that that was in nursery school. When Sally is shocked, Peter mockingly reveals the source of his nickname (hint: it wasn't because he could run fast.)
Flash: I was four, okay?!
Jameson: I'm giddy like a schoolgirl!
Jameson: He did it! My boy did it... HEY, HEY! I'm not paying you bums to watch television! Get me a new layout in seventeen seconds OR YOU'RE ALL FIRED!!!
Spider-Man's battle patter lends itself to many funny moments, such as this exchange during Spidey's fight with Montana/Shocker.
Spider-Man: ..you've had more shots at me than Marko and O'Hirn -and done about as well!
Shocker: Them boys are punks. This is my profession!
"Okay, the thermals with the hearts were half-price, and do not reflect my very high macho quotient."
Sandman and Kraven meeting the for the first time in "Reinforcement". Kraven enters, and notices the unpleased look Sandman gives him, prompting him to ask what's his problem:
Sandman: I've had bad experiences with cats.
After Spidey beat the vaultand recaptured all the inmates released by the Green Goblin, Jonah states his believe that said in-mates all have been working with Spidey. Captain Stacey immediately asks him why would they do something like that.
When Jonah has been dragged to the opera by his wife for Valentine's Day, he tries to get out by claiming that he must investigate faint sounds coming from the lobby ("Could be news!"). He proceeds to walk in on the three-way fight between Tombstone, Silvermane, and Dr. Octopus.
"Woah, I thought I was just making an excuse!"
And earlier, when he is whining to Joan during the performance, another attendee, Hobie Brown, turns around to shush him.