Hey there. Sorry, I just saw you comment asking to chat. I'm actually away from the problematic computer, and I'm now on my laptop. I didn't want to be rude and igore you, though.
I route all sound to the computer with the speakers. It should be noted, just to be sure, that if I play a song in Banshee, the sound is perfect. I just mention that because that, to me, makes ot seem strange that it would just be a connection/speed issue.
The current system with paprefs, etc. looks like: App --> PA server server --> network --> PA client server --> speakers
no, it's something to do with how Flash packetizes its audio -- maybe it's using lots of very small chunks to break it up, so it somehow overwhelms something in the chain although the total rate is the same as banshee/rhythmnbox, etc.
It might be possible to capture packets and figure out why Flash is problematic, but that's something for another day (besides Flash is closed-source...)