If you really "JUST" got it there are going to be tons of micro bubbles. nothing you can do about it. After a day or two they SHOULD subside. right now at the bottom of the skimmer body its probably filled with bubbles just like the rest of the skimmer body. Once its broken in after a day or two or three there shouldn't be any bubbles at the very bottom of the skimmer body (where the water output leading to the output pipe is) and you will be able to see the water output opening clearly at the bottom of the skimmer body. Once that happens you shouldn't have any micro bubbles except perhaps temperarily when making changes to the water.