I had a couple of thoughts on your message. First, it's better to vomit every time you do the flush and eventually heal yourself, then to stay sick. I vomited every time, but eventually finished.
Also, sometimes you're going to feel worse before you get better because the flush is stirring up a lot of toxins.
You may have gotten the Salmonella in the first place because your body had a lot of waste in it. The body uses bacteria to help rid itself of waste when it has no other options.