Curious. So, this would either help saves or leave them alone, depending on the LA. As for HP:Hmm... what I did with monsters that offered LA was that I made up an "LA" class that had a d4 HD, 2 skill points per level, no class features, and a bad BAB and saves (all of them) progression, and anyone taking a race or gaining a template that had LA of X gained X of the "LA" class. I actually wasn't sure whether or not it was a good idea. I don't know why I did it. Oh well, nothing horrible came of it, so it's all good, haha
A goliath barbarian 1 (ECL 2) would have 4 + d12 (averages to 6.5) + 2*con modifier hp, rather than 12 + con. They'd have a more random HP total, and tend to be ahead if their con modifier was 2 or higher (which it probably would be at anything from 25 points buy up), and behind it if was less.
A half-dragon barbarian 1 (ECL 4) would have 4 + 2d4 + d12 + 4*con modifier (which averages at 15.5 + 4 * con) hp, rather than 12 + con modifier, and would therefore be significantly less fragile - no bad thing, on the whole.
And as for skill points:
A tiefling rogue 1 (ECL 2) would have 4*(2 + int) + (8+int) skill points, rather than 4*(8+int). So the point of equilibrium would be if 5int +16 = 4int+32, ie if you had an int mod of +16; all in all, the tiefling would really be hurt by this. Obviously this would matter a lot less if you had 4 skill points per level, and be an actual positive if you had 2 skillpoints. At higher LAs... well, you wouldn't be playing a skill monkey anyway. Which skills would be class skills?