UPDATE (07.15.10): The USGBC has now updated the official checklists incorporating pretty much all of the features called for in the post and from your comments! Check out this post for direct links to each of the checklists that are now unlocked, feature a notes section, and highlight whether the credit is part of the design or construction review.
UPDATE (01.25.10): I've created much improved unprotected versions of the v3 checklists, and linked to a set of slightly better than previously reported official USGBC checklists on this post!
In the comments of the post featuring 7 Reasons the New PDF LEED Checklists Stink, my new best friend Joe Malone, LEED AP just posted a link to a LEED-NC v3.0 excel spreadsheet that I'm sure many of you will want to use. I checked the USGBC website to see if they were sticking with the horrendous PDF versions but could not yet find any at all. In their defense, the system has not even been launched yet, but I'm curious to see if they stick with PDF or switch back to the old useful Excel version.
NOTE - 04.07.09 - I needed to use this for the first time today and found it a bit 'buggy' for lack of a better word. It worked for the most part but had trouble saving and re-sizing in Excel. Also, this is based of a protected .xls file. Though still useful, I'm looking into posting a completely unprotected (and one page... Go TREES!) version in the near future. I'll be sure to update this post if/when that happens.