Knocking noise after new exhaust gaskets

Did you replace the collector gaskets? If you did, you probably turned the collector flanges and moved one of the piped close enough to something that the pipe is hitting it. I would check that first. You should be able to just loosen all three bolts and turn the flanges to reposition the pipe.
I did have to pry the right side out to get the new gasket in. I was thinking somewhere in the exhaust has to be my noise. So I tightened all of the exhaust gaskets at the collector too and started it. The sound was still there but its not there at 2000 rpm. When I let it warm up for a minute or two at 2000 rpm the noise was gone when I went back down to idle. Could it be a bad lifter that had to pump up? or did the exhaust just seal itself at temp? I guess time will tell when I take it out next time