It will not, it is just an annoyance, it comes from the parts clapping together.
Eklikewhoa- I got your pump and it is on it's way back. The problem was simple, the stainless steel washer needed to be removed before you installed the new disk and the disk was a bit rough. It still makes some noise but it is much, much better, it would be ideal to run it continuously for a week to get the new parts worn in before trying it on a wavecontroller. The disks are a critical component to getting the right spacing in the electromagnetic field so if you have it stacked too high or too low you will get noise, too high the magnet is pushed out, too low and it gets pulled in.