I think in Window of Opportunity, Daniel has the line "no I realize the Asgard returned you to normal, which is good--I suppose..." Is that what you're thinking of?

I'm guessing New Order - post Ancient download.

My favorite late season Daniel quote:

"Don't you ever give up?"

"Not until I'm dead... and sometimes, not even then." :)

Daniel has great snark lines, yes!

"What kind of archeologist carries a gun?"

(Daniel raises his hand)

"Uh, I do!"

And one of my favorites, in Fifth Race (sorry, kinda long here, and I copied-and-pasted it from an old post of mine):

When Sam and the others are trapped on the planet with two suns, several scientists are assigned to the problem. They describe their findings to Hammond, who turns and asks Daniel, “Do you understand what he just said?”

Daniel answers dryly, “It sounds like they have no idea.”

The scientist protests, “Well, actually it’s not ‘no idea,’ sir. Just… not much of one yet.” Another adds, “But we’re working on it!”

Later, when Jack has drawn his detailed diagram of the DHD, Daniel comes hurrying into the room where the scientists are, interrupting them with the news that Jack has the solution. As Hammond, Jack, and Janet rush to the control room, Daniel unceremoniously dumps Jack’s mysterious machine (I’ve seen it dubbed a mini-ZPM by SGA fans, and I personally find that hilarious) on the table in front of them.

“Here, you guys can work on that for a while.”

The scientists stare at it, and one asks, “What is it?”

Completely out of patience, Daniel hurries out of the room and calls over his shoulder, “No idea – well, not ‘no idea,’ just not much of one yet, but work on it!”

And then there's The Sentintel:

Kershaw says sneeringly, “I feel better just knowing there’s an archeologist watching our backs.”

Daniel holds up his knife and asks brightly, “Yeah. Which end do the bullets go in, again?”

Hee hee hee. Daniel!

Yep, it's WoO, right before Siler body checks Daniel (er, I don't recall if it's the first or second time--I think it's the second). Hee!

How about (all done from memory, so quotes not necessarily exact):
Oh that Bounty hunter one I never remember the name
Aris Boch: Doctor Jackson, would you mind dressing my wound?
Daniel: I'm an archeologist.
Boch: I know, but you're also a doctor.
Daniel: ...of archeology.

From Endgame, digging at Jack:
Boy, I'd hate to be the guy who has to tell the President.

From Fragile Balance (also a great Hammond quote--this one I looked up):
HAMMOND
But he can't be more than fifteen years old. Are you saying Colonel O'Neill has, somehow, regressed more than 30 years overnight?

DANIEL
Stranger things have happened.

TEAL'C
Name but one.

DANIEL
Well, there was the time he got really old, the time he became a caveman, the time we all swapped bodies.

HAMMOND
(holding up his hand)
Why don't we move on to the testing portion of this exercise?

Threads:
Oma: What'll you have?
Daniel: I'd like the truth, with a side order of clarity, please.

Reckoning:
Trying to leave? Sorry. A little more time in Danny's world.

I also love his freak out in Cold Lazarus that leads him to call Sam "Captain-Doctor". Isn't that also the one:

Teal'c: Your world is a strange place.
Daniel: So's yours.

"Maybe he *read* your *report*?" (accompanied by one of the greatest facial expressions ever -- when Daniel is usually so deadpan, too) is also from WoO. (Maybe even the second loop. Because Jack comes out with the mangled but mostly correct take on what Sam's *about* to brief them on, and finishes with something like, "How would I know that?", and Sam responds with smoething like, "Maybe you read my report?"

Two Sam friendship ones!

From Ascension:

Daniel asks Jack, "How's Sam?"

Jack gives a frustrated rundown on how there's nothing showing on the surveillance.

Daniel, more pointedly: "How's Sam?"

And in Affinity, because it always makes me giggle:

Teal'c is discussing his bewilderment about Krista allowing Doug to harrass her, Daniel chimes in with some anthropological stuff about how important it is in many cultures to be married (love his tone and expression when he adds, "The groom was usually quite well paid"), and Sam goes off on a whole rant about the demands made on women and how nothing is every supposed to be good enough.

After a beat, Daniel asks her, "How's things?"

"Good." Sam frowns. "We were talking about Teal'c's friend, right?"

Great expression as Daniel says, "I thought we were."

And Teal'c's zinger, when he tells them that on Chulak, if a "pledge break" doesn't work, then: "A weapon is required." :)

I know everyone else in the world seems to have hated "Bad Guys" but it amused me to no end, even if there was a distinct lack of Sam. My favorite Daniel line is when he's on the radio with the hostage negotiator and he's listing the "demands" that Cicero listed for him. The negotiator says something like "That's going to take some time," and Daniel is quick to assure him that time is not a problem, they can wait (because all he really needs is a few more hours of nobody dying before the SGC figures out something's wrong and dials in to check on them/send them a generator and a dialing computer).

The negotiator replies that the hostages may not be as willing to wait, and Daniel, annoyed, says "What, they're find, we're not going to hurt them." He does not realize that he has departed from the Fanatical Terrorist character he's supposed to be playing until he notices the "hello?!" look that Teal'c is giving him. He quickly amends "Unless you get cute!" In what he clearly hopes is a reasonable facsimile of a Confident Hostage-Taker Voice. Meanwhile, behind him, Teal'c gives an eyeroll which clearly says "Why did we give Daniel the radio, when he obviously has not watched enough television to know how to do this?" That moment had me rolling with laughter.

Daniel: "What, did she start a fight with you like Johnson did with Teal'c?"
O'Neill: "No, she, uh, tried to seduce me."
Daniel: "Oh. You...poor man."

Daniel: "This tastes like chicken."
Carter: "So what's wrong with it?"
Daniel: "It's macaroni and cheese."

Daniel: "Senator, we have reason to believe the Goa'uld are about to land and attack on ships."
Kinsey: "Then I think they'll regret taking on the United States military!"
O'Neill: "Oh, for God's sake..."
Daniel: "Oh, you're right. We'll just upload a virus into the mother ship."

Daniel, as the floor drops away and a very thin bridge appears over the hole: "Oh, this is definitely a test."
Carter: "So, uh, we're supposed to go across this."
Daniel: "I don't suppose this is the best time to bring up my problems with heights..."

Teal'c: "Chelnak!"
Daniel: "Loose translation, very cool."

Daniel: "Let me ask you a question. Who would you trust with your life more than anyone else in the world? Don't worry, I won't be offended if you don't pick me."

Daniel: "Has your hair always been that way?"
Jack: "What way?"
Daniel: "Never mind."

Daniel: "He said you were a good man."
Jonas: "Really, he said that?"
Daniel: "What, are you shocked he never let on?"

Daniel: "We get paid for this, right?"

Mini!Jack: "Daniel!"
Daniel: "Sounds like him - at least the loud, grating parts."

Gen. Hammond: "Are you saying Colonel O'Neill has somehow regressed more than 30 years over night?"
Daniel: "Stranger things have happened."
Teal'c: "Name but one."
Daniel: "Well there was the time he got really old, the time he became a
caveman, the time we all swapped bodies..."

Daniel: "There's no easy way to tell you this...so Sam's just gonna come right out and say it."

From the later seasons (9 or 10), in Lockdown, after Cam touches the buttons on Khalek's pod and he starts to defrost...

Daniel: "New guy! I thought I said not to touch anything!"

Cam: "You touched *that*!"

Daniel: "I can read *that*!"

Paraphrased, since I'm too lazy to go searching for it.

OH! From Prometheus Unbound:

"Uh, you're not really my type. And I'm a little disturbed that I might be yours."

Truer words.

From "Window of Opportunity" (at the begining of every time loop)
"That's just how I feel. What do you think?"

From "Watergate"
"So they occiasionally catch fire but they keep perfect time?"

From "Into the Fire"(when asked if he can walk on his injured leg)
"It's just a deep bleeding gash, but it'll be fine."

From "The First Ones"
"Don't say Ka until you've tried it."

From "Prometheus Unbound"
"Hey, you know, big guy. I'm flattered, really I am, it's just that, uh, you're not my type. And I'm more than a little disturbed that I might be yours."

From "The Ties That Bind"
"Well we've been through a lot together. I just wanted to come here myself and make sure you were…thoroughly searched."

And lastly
From "The Pegasus Project"
"I think I had her in Grade Five." (while the phrasing of this bugs me it is a perfect snark so I do kind like it despite it sending me into irritated fits)

I have two Daniel favourites:

O'Neill: No, she tried to seduce me.
Daniel Jackson: Oh. pause You poor man.

O'Neill: What's your situation?
Jackson: I'm hiding. What's yours?

On a sidenote...how are things weatherise down in your neck of the woods? It's fecking terrible up here!

Spirits gives us some great Daniel/Jack lines:

DANIEL: Jack?
JACK: Daniel?
DANIEL: Are you you?
JACK: Yeah. You?
DANIEL: What?
JACK: Never mind. Tonane, we need to talk.

And...

JACK: How do I know you're really Daniel?
DANIEL: Because.
JACK: Yeah, OK.

From Tangent:

DANIEL: Mak tal shree! Lo tak meta satak Oz!

"But it's Swiss!"

Okay, getting away from my apparent "faux pas" of Bad Guys by listing some more (I *think* I'm not repeating, but please forgive if I have)...

Serpent's Grasp:
O'NEILL: Well, I suggest the two of you figure out how to get us back home.
CARTER: Sir, the only way to that would be to turn this thing around and go back to where we started.
DANIEL: Right, I'll just go tell the pilot.

Chimera:
TEAL'C: Knowing your past experiences, Daniel Jackson, I do not know how you have slept well before now.
DANIEL: Thank you Teal'c. This conversation has been disturbing on many levels.

Upgrades:
DANIEL: I can read...REALLY fast!

The Scourge:
SHEN: Is this the part where you tell me [blah blah about the merits of the U.S. Stargate program.]
DANIEL: Actually, I was going to say the meatloaf's quite good.

Jack- "Is that snippiness?"
Daniel- "Is that a word?"
Jack- *eyes him*

"Who shot me?" (Okay, this one is really more of a team moment, but still.)

From The Tomb
"Yes, you go down the dark hallway alone, and I'll wait here in a dark room alone."

"Oh, well, my translation is a little bit vague. Um, I think the circle means 'the place of our legacy'...or it could be 'a piece of our leg' but the first seems to make more sense."

p.s. is it ok if I friend you?

CoTG: "Unless we want to give ourselves a bad reputation, I think we should avoid shooting the first people we meet on a new planet."

Thor's Chariot:
Daniel: "This is the Hall of Might?"
Gairwyn: "You were expecting something different?"
Daniel: "Well, uh, maybe a hall?"

Demons (after arguing with Jack): "Ok, I'll tell you what. You guys start back without me. I'm just going to go see if I can stop these people from a drilling a hole in the head of a young girl."

Scorched Earth:
Jack: "Tell me....tell me you're not on that ship."
Daniel (making it sound like a total lie): "Okay, I'm not on the ship."

The Curse (after getting ribboned yet again):
Sam: "You all right?"
Daniel: "Oh, yeah! Yeah! I think I'm...getting used to that thing!"

Abyss (to Jack, after the rescue): "I always seem to be saying goodby to you."

Enemy Mine:
Jack: (speaking about Col. Edwards): "He's an okay guy, Daniel. He's just under a lot of pressure."
Daniel: "Yeah, yeah. I...I guess I just spent a lot of time breaking you in, I just didn't want to have to start with a new colonel."

Avalon (to Vala when she keeps interrupting): "Still not a minute."

Bad Guys:
Cameron: "We've got ourselves a bit of a John McLane here."
Daniel: "What? What are you talkin' about?"
Teal'c: "Die Hard."
Daniel: "Oh."

(Final translation on that 'oh' -- 'I still have no idea what you're talking about.")