I had a sub problem and wanted to see if it was the signal or the sub, so when it went out, I plugged my ipod into the subs input with an 3.5mm x rca cable and the sub worked fine, come to find out it was in the avr programming, it would switch to direct when it played certain channels.... I fixed it with a new HDMI cable after talking to tech support...
First make sure you are getting lfe signal to the sub... and the sub has power...
if you are getting signal and the sub has power than it is the subs int. amp that has the problem...
If you dont have signal than it can be you sub connect cable, programming, source cables, ect....