I'm surprised we don't have a topic like this yet, since most of the people on the board seem to ship at least one pairing from cartoons or anime :D
Well what is your top ten ships? Why are they so awesome?
10.
Kim Possible and Ron Stoppable (Kim possible)

Sure it took three seasons which only featured a few shippy episodes to make these two a couple but when it happened it was awesome.
9.
Tamyo Kizaki and Kotaro Kobayashi (Angelic Layer)

Poor Tamayo, loving your best friend since kindergarten but never telling him....That has got to suck. They've been best friends, she's known everytime he's had a crush on a girl, and now she finally admits to being in love with him while chasing him on the beach crying.Cute but sad, and then funny when later they get stuck on a elevator together. It ends well though by the end of the series.
8.
Robin and Starfire (Teen Titans)

Wow, I haven't watched TT in awhile but I did alway love the ship :3 Even a totally cool hero like Robin got all nervous when trying to tell Starfire he liked her XD Cute!
7.
Jordan and Eva Wei
Though I don't like Eva with Jordan as much as I do with Aikka I still love the shipping.....So many awkward moments X3 Once again, it's totally one sidded (Jordan can't help but love her) but cute!
6.
Katara and Aang (Avatar)

We all know it's meant to be <3 Katara was the only thing that was holding Aang down to the world so that he couldn't accomplish the Avatar state afterall. He still hasn't been able to give her up totally and their moments are sometimes cute and sometimes serious :3
5.
Aelita and Jeremie (Code Lyoko)

NERD LOVE :D Enough said.
4.
Toph and Sokka (Avatar)

So what if it's horribly one sided? Toph having a crush on Sokka is adorable! Though I highly doubt the show will end up with Toph and Soka together i'm hoping for at least a couple of moments of cuteness between the two :D
3.
Aikka and Eva Wei (Oban Star Racers)

The Nourasian prince and the Earth "princess" XD I loved Eva's first reaction and their interactions throughout one of my favorite shows of all time.
2.
Satoshi and Kasumi (Pokemon)

Yep, i'm a Pokeshipper, though a lot of their shipping in the show was due to the dub, there was a good amount of shipping between the two in the Japanese version. I loved the awkward moments between the two, and the moments between them that just made me smile and go aww or laugh. Though I like Advancedshipping too I will always be a Pokeshipper deep down.
1.
Sonic and Amy (Sonic The Hedgehog)

So this is my favorite shipping of all time, Amy Rose is determined to make Sonic love her and in the anime it has seemed to work (well at least sort of). It's cute and light hearted, never too serious and alway fun to watch.
Now I feel all warm and fuzzy inside <3