Terrible engine knock, misfire codes and P0441 code after headgasket replacement.

After doing a head gasket replacement on my 2012 Prius, I started the car and my engine is knocking pretty bad and im getting engine misfire codes and the P0441 code. I've cleaned the EGR components, I've checked my purge selanoid valve, MAP and MAF sensors, checked my hoses and wiring. None of my pistons were bent. I followed a Toyota manual the whole way through the repair. Maybe my crankshaft is trashed? Does anyone have any ideas?

 

I tore down the engine all the way down to the head gasket and I cranked the engine over to check if all my pistons came up to the correct height, and they all did, none of them sat any lower than the other. One problem I did see while inspecting the pistons, was that on the top of piston one, it had some tiny dings scattered over it. I should mention too, I drove this vehicle with a bad head gasket for a little while, so I'm not sure what kind of extra damage I might have caused.

 

Well what would you check?

 

A little over 200,000 miles, and that is some good insight, I never thought of that.

 

I double checked my timing and when I cranked my engine over it eventually ended back up on top dead center with the timing marks in the right places and the camshaft lobes were at manual specifications. I was thinking there may be too much slack in the chain? But the tensioner is released.

 

I am getting a misfire code for every cylinder and I'm getting a random/multiple cylinder misfire code. I started it up quite a few times after replacing and trying new things and the longest I let it go was for almost a minute but it sounded so horrible that I shut it down because I didn't want to mess anything else up. And I tried shifting into neutral and drive and gave it some gas, it sounded different but not better, almost like clattering metal in the engine and it sounded like it was loosing power at times.