If you're using the external reactor from NA and the reactor doesn't seem to fill up, give it about a day or two and it'll fill up the whole reactor. Also "turn-off" the surface skimmer until the whole reactor is filled before adjusting the skimmer. I noticed that my reactor will not be fully filled when the bottom suction of my skimmer is choked and it'll get worst by the day and you will also notice that the top suction becomes stronger than usual.
As for the noises coming out from the filter, check that the filter is fully filled with water.
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