Thank you for getting back to me JimDirt. I used all OEM parts. I also replaced one of the cam chain guides (opposite the cam tensioner side) as it was excessively worn but did not replace the other. I have not pulled the head cover yet but I definitely will now that you mention it. As for putting the piston in backwards, I suppose its possible but when I put it in I remember taking my time and double checking because I was actually worried about that exact scenario but again I suppose I could have. I'm definitely concerned about my ring placement positions but I followed the ring orientation recommendations. I did not replace the crankshaft or piston rod assembly, but there was minimal lateral movement and no noticeable vertical play.
As for the piston , the valve reliefs would indicate front/back , if you put the larger reliefs facing the rear , you should be fine ..... if the ring gap as not where they needed to be (basically if they were all in the same position as far as gap goes) you would notice oil burning , or low compression , not so much a noise ..... it is also possible to put the rings upside down , but if you followed the procedure you would have noted the markings and should be ok as well
As far as the rod goes , if it was not knocking before you took it apart , it should not be knocking now , though a new piston does put a extra load on the rod/crank , unless something hit the piston , like a valve before rebuild , there should not be a issue with that .... It might be as mentioned and just be "normal" engine noises ..... though you did mention that it did not sound like this prior to the rebuild .... so that goes back to something you might have overlooked , or inadvertently done , but the only way to find out , aside from tearing it all apart again and double checking everything you did , is to either visually or physically , eliminate the obvious items , such as verifying oil getting to the top , while the valve cover is off , you can visually check the chain tension , to make sure the other chain guide is not the issue (if I replace them , I always replace both) .......
Video's help , but not always , as the noise is not the same on video as it is in person .... so a video may or may not help .....
But you should be able to embed a video into your post , as long as the video is on Youtube or Vimeo or some site like that , then you can embed it , or link to it ...