Brenna is right - you should do a ide-by-side reading of your tmplate and the default ones to see if they've reformatted any code - you might find a different or better way to do something. :D
I found templates for the search feature in the
documentation; that's not automatically added. I also discovered that I needed to turn on several new features in Blog Config (like TrackBack Auto-Discovery) - they weren't automatically enabled.
Hope this helps! Answering your question brings my ratio of questions I've asked versus questions I've answered to roughly 10/1 :p
Donna