Thanks for the advice. So it sounds like the only consensus is that the stock pedals are pretty crappy (which I've read a whole lot in other posts as well) so I guess I'll plan on replacing those and then ride it around to see what else I might need to change for fit/comfort.
I already have a solid U-lock and cables as well as a couple different helmets. I have a mountain bike I've converted to a daily commuter, but I'm looking forward to converting it back to mountain again and use it for commuting only when the weather is crappy. The SST will be my fun fast bike that I'll use to commute in good weather.