I was planning on ordering a complete Cross Check and upgrading certain parts when it came in to my LBS (like changing the saddle to a Brooks), but threads like this one got me to think about doing a frame-up build and put the parts I'd want on there the first time. A complete CC is $1150 + $100 for the Brooks saddle so $1250 (before taxes).

For a frame-up build, this is what I've come up with in terms of a components ($1450 before taxes, includes CC frame):

Drivetrain...
Shimano XT front derailleur.
Shimano XT rear derailleur.
Shimano SLX crankset (w/BB, 42-32-24).
Shimano SLX 10 spd cassette (11-34).
Shimano Dura-Ace bar end shifters.

Brakes...
Tektro CR720 cantilever brakes.
Tektro 520 brake levers.

Wheels/Tires:
Mavic Aksium wheelset.
Kenda Happy Medium Cyclocross Tire 700C X 32.

Misc...
Brooks B17 saddle.
Easton EA50 handlebars.
Cane Creek 'Tank Jump' headset.
cables, seatpost, chain, etc.

I can replace and adjust brake/derailleur cables and install cranksets, but I am no parts expert when it comes to the what kind of parts are better than others. So if anyone would like to offer some advice on the parts I've choosen it would definitely be welcomed.

The bike is going to be a 50/50 of on-road vs trail riding while commuting and heading out for fun rides.