I found that a check valve can cause that. a whole bunch of bubbles will come out rapidly, and then stop, start again and so on. Removed it and it stopped.
Also a small leak could be the trouble. I've had it before where just a small airleak would not allow bubbles, but when you shake the solution, it starts bubbling.
i was thinking that the check valve might be the culprit. but I'm a bit wary of taking it off since the co2 bottles are below the water line and the last thing I need is water damage in my dorm room. how much of an issue is the possibility of siphoning occuring if I remove the check valve?