Hi there
I doubt that we started from the same point. When I started using Linux last year I had the advantage of many years of embedded SW development (assembly language, 8-bit uP, roll-your-own micro kernels) and about 5 years hacking on the kernel at a major Unix company.
The first Linux board kit I evaluated was from SSV Embedded Systems, and they include a CD-ROM with a lot of helpful info (eg step by step downloading and installing a kernel using tftp and U-Boot) and utilities (Ethereal and a Windows TFTP server). Some of the docs are at their site:
http://www.dilnetpc.com/dnp0072.htm
In comparison, the Atmel EK came with an obsolete DVD-ROM that had zero info on the 9260 board. That may be one way to steer you to LinuxLink.
I took advantage of the free 30-day subscription to LinuxLink. At the time it was definitely the easiest way to get the latest kernel for the at91sam9260ek. The last I read, they're still on 2.6.19, and customers want some of the latest patches, like the Ethernet TX underrun fix. But LinuxLink/TimeSys does offer a lot of startup docs, although their local search engine is lame.
Google has been invaluable. Knowing the jargon helps get meaningful search results. Or using the keywords of error messages or phrases can get reports of similar/identical problems and possible solutions.
Regards