Hide the handy grid backgrounds
Clarify the number of columns on the homepage
Queue Google Webfonts, instead of @import
Tweak functions in custom.php
Include gallery again
Remove photon.php
Remove roots_main_class and roots_sidebar_class
Remove the negative bottom margins on the article footers
Pull the #wpstats image onto the footer background
Try using Susy's columns, instead of column-count
Temporary bandaid on Root's gallery output
Better proportionally scale images

http://www.456bereastreet.com/archive/201306/how_to_proportionally_scale_images_that_have_dimension_attributes/
Include post_formats.php, for some post-format-specific functions.
Remove photon.php
Differentiate a line of sample code in config
Nope — can't do custom post formats.
Remove the last traces of chosen
Remove inline styles from gallery's format
Surround the entire figure with  a link (in recent_jobs)
Update content-link to better use the links from the post