My advice is to politely question any obvious mis-quotes. They could have just made a typo or innocent mistake. I didn't get a price breakdown other than a general difference in total price based on specific upgrades. But this isn't to say that you shouldn't ask for one.

My experience taught me to ask anything and everything about what they're putting on the bike. I made mistakes by not asking enough questions or getting confirmation about the parts and the schedule. I would recommend being overly assertive on this, to prevent misunderstandings. Some of the "odd" part recommendations could be choices they make for the average customer. Wheels are really important - if you want something different, then push for it. It can all be redone, but it adds to delays in getting your bike. We had several verbal agreements that were forgotten, and then I made sure we had written or email confirmation of everything.

For what its worth, my LBS includes a 90 day free pass on making changes, where they only charge the difference in the price of the components. No labor charges, in other words, to swap out something I didn't like after riding the bike for a while.