Do you have a bubble counter on your CO2 regulator? If so, how many bubbles per second are coming out?
Can you post a picture of your reactor just for reference? There may be an issue of the gas not dissolving as it should, but I am not sure we have enough info yet to determine that.
I know that in my experience when I do a water change and have to prime my filter again I do hear water falling inside the reactor, but that generally only lasts a short time as water fills up the column. My bubble counter runs ~3bps and my drop checker is a nice green at the end of the day. Anything higher than 3bps will send my fish gasping for O2 within a few hours.
You didn't mention it, but you may need an additional power head to properly circulate the water in your aquarium.
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