This is going to take an extraordinary amount of time. I watch way too much tv and thus have loads of ships. I don't actually expect anyone to read this, it's mostly for me. Plus, this list already got deleted once.
CSI: Miami
Horatio/Yelina: I don't actually think this ship is going to happen at this point, but I love watching the earlier seasons and imagining what could (should) have been.
Calleigh/Eric: I think this is a sweet ship, mostly because Eric really had to change (aka, no more party boy) to deserve someone like her. Love the seventh season, with his pining and then them finally becoming a couple.
Ryan: Poor guy! I think he really deserves a relationship, but I can't see him with anybody on the show.
CSI: NY
SMacked: Mac/Stella: These two are perfect for each other, and I think they'd be as comfortable in a romantic relationship as they are as friends and colleagues. However, they are one of those ships that needs to simmer for a loooong time (too long for some of us) before they boil
DL: Danny/Lindsay: I mostly liked seasons three and four for this ship. I really loved the storyline the writers had planned for Rikki, but it's not like Anna Belknap got pregnant just to annoy me, so I'm left asking TPT why they couldn't fit Rikki's storyline in there anyway. Now THAT would've been awesome!
Flack/Angell: I absolutely loved this ship. I can't imagine how Flack's going to feel and act during the new season, but I'm definitely going to find out!
Adam: See Ryan under CSI: Miami.
Flashpoint
Sam/Jules: I liked this couple, sort of ruefully. They were sweet, but I couldn't help a hunch that they'd both find someone better suited to them, respectively.
Wordy/Donna: Mostly as a friendship. Wordy's married and they're both too honorable to ignore that, but I couldn't help thinking that if he weren't...
The Mentalist
Jane/Lisbon: Not going to happen for a loooong time, but eventually, I'm sure. Just like Huddy, you just know something's going to happen sooner or later.
Grace/Rigsby: Totally sweet, I just can't wait to see what happens
NCIS
Tiva: Tony/Ziva: Tivativativativativativativativativativa. Do I make myself clear? If not, any NCSI buff will know what I mean when I say: Under Covers, Boxed In, Shalom, Dead Man Walking, Angel of Death, Bury Your Dead, Family, Recoil, Judgement Day Part 2, Agent Afloat, Cloak, Legend, and, finally, Aliyah!!!!!! I can't wait!!!!!!
McAbby: McGee/Abby: So sweet, and absolutely perfect. It's just a matter of time.
Jibbs: Jenny/Gibbs: I officially hate TPTB.
Kibbs: Kate/Gibbs: Only in Air Force One, but definitely in Air Force One!
Tony/Kate: I'm not really sure. There were definitely some moments where I'd think 'yes, they're perfect', but then I'd decide against. I guess we'll never know.
Numb3rs
Charlie/Amita: Perfect, and I loved the fifth season finale.
Don: Any relationship he's in is very interesting to watch. Right now he's with Robin, and while I liked Liz more, I'm okay with it.
Colby and David: Not together, but see Ryan under CSI: Miami for both, individually.
SVU
Benson/Stabler: I like the idea, but there's loads in the way. He's married, they're both way to honorable as cops to be in a relationship, etc. Plus, they're named after the creator's kids, so, for that reason alone, I can't see that ship ever happening.
That 70's Show
Eric/Donna: That just works. Perfect, you know?
Jackie/Hyde: Hyde is awesome, so I love this ship. Simple as that.
Reba
Van/Cheyenne: This ship is hilarious. I love them together, they're so much fun to watch. They're both so stupid, yet good-hearted.
Bones
B&B: Booth/Bones: It's gonna happen. Just you watch. Too perfect and centrifugal to pass up.
Hodgins/Angela: This, too, is going to come back. IT'S GOING TO!
Fringe
Olivia/Peter: They're both such great people, I wonder what they would (will) be like as a couple.
Peter/Rachel: Really sweet, and it'd be interesting to see.
House
Huddy: House/Cuddy: Love the chemistry.
House/Cameron: It was funny in the earlier episodes to watch her pine, but I like her better now that she went out and got a spine.
Chameron: Chase/Cameron: I don't think this would've worked at first, but they both grew a lot over the series, and they're a good match now.
Foreteen: Foreman/Thirteen: I love this ship. It's great to see that Foreman's not an emotionless robot for once. I can't wait to see what new problems will serve as icebergs to this ship!
Lie to Me
Cal/Gillian: See SMacked under CSI: NY.
Angel
I just wanted to say, I hate the writers of this show. We couldn't have ONE happy ending for a ship?
Angel/Cordelia: I loved this ship because they managed to be witty and teasing friends as well as colleagues and perfect matches.
Fred/Gunn: He was a hard-ass, then he got sweet when he met her. It was so fun to watch this guy who seemed to only be nice when he had to soften up to this shy girl.
Fred/Wesley: Obvious chemistry, I always felt so bad for him when she was with Gunn and they'd be kissing or something right in front of him. I'd be thinking 'You can't cut this poor guy some slack? Get a room!'
Charmed
Phoebe/Cole: I loved this ship, and I hated every time they said 'Oh, he's evil,' because he wasn't! Okay, he was, but if they'd only listen to him they'd know he always tried his best to help them and protect them because all he wanted was to be with Phoebe. And they never listened.
Leverage
Nophie: Nate/Sophie: You just know this is going to happen. Although Maggie's coming back later in the season, so I can't wait to see how that works out!
Parker/Hardison: I love how Hardison obviously has a huge thing for Parker, and everyone know it except for Parker. His reaction in The First David Job was awesome, as well as The Fairy Godparents Job.
Eliot: See Ryan under CSI: Miami.
Raising the Bar
Jerry/Bobbi: They're good friends, and I think they'd be a great couple. Unless they already are, I'm wicked behind on episodes.
Burn Notice
Michael/Fiona: Do I actually have to explain?
In Plain Sight
M&M: Mary/Marshall: I know this'll happen, sooner or later. Only problem is, I'm not nearly that patient.
Eleanor/Stan: They'd be great, you can just tell. They're both laid back and genuinely nice people.
Bobby D: See Ryan under CSI: Miami
Monk
Monk/Natalie: This is a personal hunch of mine. Maybe this could happen. It's possible. Okay, prob not, but I can hope, right?
Captain Stottlemeyer and Randy: See Colby and David under Numb3rs.
Psych
Shawn/Jules: Hilarious chemistry, and did you see An Evneing With Mr. Yang?!
Lassiter: I think it'd be very interesting to see him in a relationship. Imagine the type of girl he'd be happy with!
Royal Pains
Hank/Jill: This is a bit white-bread if you ask me, but I'm pretty sure it'll get better.
Evan/Divya: I can always hope. I think, maybe at some later point in the show, these two would make a good couple, but not yet.
Crossing Jordan
Jordan/Woody: They're obviously perfect, and the finale was great, if sudden. Although the prospect of freezing to death may encourage you to say what you think earlier than otherwise. I wanted to slam that plant from her desk over his head in the fifth season premiere, but it worked out, right?
Nigel/Kate: Great chemistry, I wish the show hadn't ended and it could've gone further. The lost opportunity!
Bug/Lily: They were great for each other, and I loved Bug in the finale with Madeleine's toy.
The Cleaner
William/Akani: I don't actually want this ship to happen, since Milissa's so great, but I love the chemistry and tension.
William/Melissa: They obviously love each other a lot. William needs to swallow his pride and Melissa needs to try to be more understanding, but they're both to stubborn for this to be fixed easily.
Akani/Swenton: Call me crazy, but I loved Five Little Words.
Scrubs
JD/Elliot, Turk/Carla, and anybody with Dr. Cox.
Okay, I think that's it! Sorry if I took up too much space on the page!