Congratulations on the birth of your daughter! Things should be getting a little easier now, eh?
For the smell, there's lots that different products can do, but if you have any opportunity, then use the sun! Before there was bleach, there was the sun, and it actually works.
Defintely check out the green mountain diaper link that Hilary gave you, they are awesome. I got my unbleached cotton prefolds there, and I love them. (Potty Pail is excellent too, and if you go thru the green mountain link to the Potty Pail site GM will get credti...)
I stopped using BioKleen Free & Clear powdered detergent based on GM recommendations (said it would leave a residue that over time affects absorency) and switched to Country Save for all our laundry and cloth diapers. If you're in Oakland area, you can get it at Farmer Joe's on MacArthur/Fruitvale right off 580. GM also recommends Charlie's Laundry soap.
I use white vinegar in the final rinse cycle (cold wash w/ det, hot wash w/ det, then rinse, as recomm. by GM) After I started doing that the diapers lost any leftover smell they had, and are even a little bit softer.
I do use Bac Out for the covers, I don't wash those with the diapers because I don't want to wear them out (I got some that will fit newborn to toddler, and would like to use them for the next child too!).
Good luck! I actually love the work that goes into using cloth, it makes me feel terrific knowing I'm putting something soft and safe next to my daughter's bum!