Okay here's what I did. I washed them in really hot water and did the stripping with a squirt of dawn dish soap, and washed and rinsed until there were no more suds, at least 5 washes/rinses on hot water just to make sure. I increased the amount of water in the machine because it looked to me like when it was set at auto it had just enough water to cover the diapers up. We do get some stains and lime scale build up so I guess we do have hard water. The only reason I wasn't using more soap is because everyone was saying not too!!! I will try to add more soap, and see if that helps. I did go and get Charlies soap to try out (hopefully that wasn't a mistake) I also have some Oxy brite, that I will try soaking once a week or more if needed. We have a fisher and Paykel Eco smart washing machine. It doesn't say specifically anywhere that it is an HE machine, but I assume it is because it is newer and wasn't cheap!!! They did come out smelling better, but I'm still not sure, it seemed like there was a lingering poo smell on some of the cloth inserts, but I'm pregnant and super sensitive to smell right now so I may just be faking myself out.
I also forgot that I started using cloth wipes instead of disposable wipes and I was making my own wipe solution with water, Berts bees apricot oil, and a little bit of bert's bees baby soap. I am thinking that is about the time the diapers started stinking because I am washing the wash cloths with the diapers. Is there anything I can use on the wash clothes to help clean up the poop, but not cause a problem with build up or stinkyness? It won't do just wiping my DD with a dry wash cloth, her poo is really sticky sometimes!!!