Hey all, thanks for the feedback!
I'll check out the videos and articles.
To answer a few questions:
I'm using platforms, but with power grips. The Power grips are loose enough so that my feet can splay out a bit and aren't held straight. They are a fairly new addition though, and I was getting knee pain without them just on platforms. The knee hurts generally below the kneecaps and around that area.
As for overdoing it at first, that was definitely true--when I started out on the bike, the seat was way way way too low and I hurt my knees like that on the very first day, but as I rode it, I kept adjusting it upwards for a week or two at a time until I got to the height seen on the video. The thing is, I didn't ride for December and part of January, and figured that would be a good break, but when I started up doing intervals again on the trainer, I'm definitely feeling weakness and some pain.
I've already moved the seatpost down a few notches and will see how that feels.
Regarding the plumb line and saddle--in the screencap images I drew lines:
http://www.bikeforums.net/attachment...1&d=1361130679
http://www.bikeforums.net/attachment...3&d=1361130685
To me that looks pretty good, but maybe I'm not seeing it right--what do you all think?