I have two major gripes with the new site layout: number of actions required to get to information, and hidden URLs.
The new site layout requires me to click and scroll a lot more than the old one did. Clicking on a project takes me to the middle of the project page, to the particular release. This means all the information I usually care about (the description, the programming language, the supported platforms, etc) require scrolling. When I do scroll up, I have to click two or three times to see all of that information, since it's all listed on different tabs.
I have two suggestions to improve this. First, when listing projects, split the link into two parts. When clicking on the project name, the user should be taken to the top of the project page. When clicking on the version next to the project name, the user should be taken to the release anchor. Second, since the amount of information in the tabs will always be small (How many projects use a dozen programming languages, have twenty licenses, and run on ten specific unixes and three versions of Windows?), all of that information should be combined into a single box.
The other major gripe I have are the hidden URLs. In the old site layout I could see most, if not all, of the URL immediately. With the new site layout, I only have the option of seeing the host, and only after I stop and hover the mouse over the link. The second or so it takes for the tool tip to come up may not seem like much, but it's annoying and breaks the flow of browsing. I suggest either going back to using the actual URL as the link text, or adding it to the end of the link URL, so it shows up in the Status bar when hovering over the link (for example: http://freshmeat.net/urls/c3757ee2a3d9e1d60fb9adebc74728a8/www.conquest-game.com/).