It would seem that this all happened after you added the new rock, so I wouldn't change your skimmer settings. Did you rinse the new rock first? What kind of rock is it? You said "base rock"...do you mean dry, lifeless rock, or LR that doesn't have much on it? If it was LR, your skimmer might be going crazy due to the LR not be cured.
Oh yeah, 25lbs might not be alot of rock on a large system, but can cause issues when adding to a smaller system (I'm not sure what size your system is).
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