If you're talking about the R/B/Y/(G) revamps, then I followed the pattern left by the old-school games, while using colors from Gen III and beyond. I never wanted to change their color arrangements, just the color palette.
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Pichu:

New stage WIP, untitled but will have a title soon!

http://img8.imageshack.us/img8/8294/unledstage.png
http://img30.imageshack.us/img30/8294/unledstage.png
http://img600.imageshack.us/img600/8294/unledstage.png

The RMS Queen Smash!
I'm currently fixing the perspective issues, so don't fret!
Colors aren't final.

The tube thing in the middle doesn't look quite right. Can't put my finger on it...

The "tube thing" is a smoke stack/ship chimney/exhaust pipe. It's in the background, and I don't think it's to perspective yet.

It doesn't follow the laws of physics. The picture makes it look like there's only a tiny bit of deck beyond the metal platform, yet the smoke-stack is thicker then that amount. It would fall off.

Makes sense. I'll be updating it soon.
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Meanwhile in character sprite land, I present to you, Link!


I plan on making an expansion of some sort out of this. Any critique would be much appreciated.

Colour pallet is good, could've used a darker darkest shade though IMO.
Outlining and lineart definetily need improvement, lines need to look less wobbly and some parts need new outlines (looking at the boots for example)
Details are overall lacking, Shield is barely the Hylian shield in shape or colouring, Master Sword looks like Meta Knight's Sword in KSSU, his hat is rather short, belt looks like it cuts his organs inside in two and the way the knees bend is slightly akward. Detailing is rather difficult tho. Clothing could also use the V-neck and some folds IMO.

Try to pay more attention to shapes and details, colouring looks decent.

I did use a N64 game as a reference, so detail probably could use some improvement. :p

I do appreciate your help, though. Thanks Damian.

UPDATE:
Fixed up Link! NOTE: I forgot to color in the sheath, so ignore that.

You keep making his legs look feminine. First it looked like he had heels, and then that... Link has the triforce of courage, MAKE HIM LOOK COURAGOUS. Right now he looks like a cheap hooker, IMO... Mainly the legs are a problem, but I'd suggest starting over with a newer reference... How is he supposed to fight standing like that? You definitely need to fix that pose.

I found the pose to be far superior in the first image.

The limbs seem to be incredibly disproportionate although you've almost nailed the basic outline.

Thanks. Will fix, though I liked the second one's pose better. Ah well, I can see some general flaws on it, so I'm not too worried about that. Thanks for the critique.

So the checklist looks like:
-Fix legs

Any more problems before I fix anything else?

I honestly think that you'd do better just starting over. It doesn't look that bad, but it definitely could be better, and a lot of the times it's much easier to start over than just fix every miniscule error, because right now there are some problems legs, yes, but there are also problems with arm shape, shading work in general(though I do agree with Damian, the colors aren't bad), the shape of the sword and shield(polygonal is not good, I'd suggest using a newer reference), the hat's lineart needs work, too many lines look straight. Then the face is off, the hair looks too high and too far forward, I suggest using a pose with a 3/4 view instead of a straight sideways view. You have a 3/4 view with the body, but the head is straight forward, and that complicates things.

I think the main main problem with your sprite is that you're drawing with pixels.
Don't worry, loads of begginers do it, but it's actually quite different from spriting.
The difference is hard to explain, but basically it's that you're not using the medium to it's full potential.
Try making something smaller. This will help for a number of reasons.
1: It's easier to make smaller sprites period.
2: Detail is easier to incorporate.
3: Smaller sprites are easier to animate.
4: It's too big to be an expansion as it stands.