I was messing around with my system today (what's new?

) attempting to find the best settings to make do with my receivers' terrible bass management until I can get a new one (crossover won't go below 100hz while sub has rolls off around 100hz). I did get it to sound better by setting the front/center speakers to large, which sends bass to the speakers but oddly, keeps the subwoofer in action. This setup definetly fills the void that was there.
Anyway, I am kind of getting off topic. The issue I experienced is with my subwoofer. It is a DIY job (seen
HERE) with a Parts-Express 250w plate amp. I was messing with the phase dial to see if it made any difference... It did... though not in a normal way. I noticed, after turning the knob back to 0, that the sub was no longer making any sound. I was getting a little jumpy because the last thing I want is a dead sub. I turned up the volume on the sub and I could heard a little bit of sound. I started turning the phase knob back and forth and the sound came back. I turned it again and the sound went away.
I have now concluded that if I turn the phase knob away from 0 the sub will stop working until I turn it all the way to 180 and rapidly turn it back to 0. Even though it is now working, I swear it isn't as loud as it used to be, but that might just be my mind.
What could cause this?