First he has problems in filling slots, just today three candidates (for Surgeon General and two posts in Treasury withdrew), that's after two withdrew yesterday. Prof. Light has been compiling figures on the number of nominees and the number confirmed, he needs to keep score on those withdrew. That's one downside of proclaiming high ethical standards.
Another problem is implementing good ideas, like "recovery.gov". See this Federal Computer Week article on the problems in feeding data from the agencies into the site.
A third problem is confirmations--two nominees for the Council of Economic Advisors are being held up in Congress.