Does this occur right after hard thottle and then a sudden lift off the thottle? What you are hearing is possibly compressor stall. The factory intake may have covered this noise and now the open AFE might not hide it as well. A change in driving style would fix this. Just roll off the thottle easy. Compressor stall won't damage a stock turbo in a stock environment, but could end the life of a turbo on a modified truck.