actually, maybe this is a better way to understand it.
You set up your AV system like normal - running interconnects out to your amps from the "pre-out's". Now, instead of running the interconnects - like normal - directly to your amp's for the left and right channel, however, you re-route them to the "HT bypass input of your 2 channel preamp. Then, like you would normally for your 2 channel setup, you run interconnects to your amp for the L/R stereo speakers.
Basically, you're simply wiring the 2 channel system into the signal path of the pre-out's from the AV preamp, for the left and right channel. Or, you're looping the AV pre into the 2 channel - however you prefer to think about it Infact, the signal from your l/r channel out's from your AV pre/pro are simply being looped through the 2 channel preamp - and the "HT bypass" is switched on when you want to use the AV pre/pro.
Now when you want to use the 2 channel setup (2 channel preamp) for music, cd, tape, tuner, record player, whatever 2 channel sources you have, you simply run your 2 channel setup like normal, switching the 2 channel preamp to those inputs (which you have those sources connected to the corresponding inputs.), NOT the "Bypass" setting! And correspondingly, you only need to turn the AV preamp on when you are using that for movies, er whatever else is connected to that pre/pro.
Good luck