I had added a soource for compiz/emerald today, After installing emerald I commented it out, when I did apt-get update a bunch of repo's started failing. I tried an upgrade for sysaptic, since it was in the list I figured I was safe. Well it removed it, but reinstalled it. Am I the only one having problems with the repo's? Or is this a wide spread problem?

I had that same problem once or twice froggy. Anticapalista was nice enough to tell me not to sweat it.
He said the server might be down and to try again Later. I tried again later and viola, everything was cool. This reply is for your 404 message in chat.

As far as synaptic goes. I don't know how you went about upgrading it. I don't use Synaptic for upgrading. I use the terminal for that as root user. I just run the Lenny repos to, instead of Sidux.

To get synaptic back,
apt-get update
apt-get install synaptic

You might need to do

apt-get -f install

Was hoping that's all it was. I'm booted up in Ubuntu at the moment. I'll check on it in a lil bit. Thanx.