Engine Vibration 3k RPM

If the engine really was not balanced before assembly....
...with 8 KB-pistons roughly 150grams lighter than the stock pistons, there's some significant unbalanced weight flinging around in the engine now...

I think you should be able to feel that by just putting your hand on the engine while revving it up.
I agree BBM if it is that far out of balance it would shake all the time not just around 3K rpm. There is more to this story.