Glad you found your AHRM!!
I find some things hard to find in AmigaGuide etc - personally, I hang on tight to the physical books I have and make frequent use of a printer.. :) Having timings etc on paper in front of you is imho perfect anyway..
You definitely need:http://cache.freescale.com/files/32bit/doc/ref_man ual/MC68060UM.pdf
...as well - and then read chapter 5 and 10 again and again until your hair has faded completely.. ;) Short of a physical copy (or even with one), I'd recommend to print out relevant pages here and there. For me, it's of great value to use marker pens etc to highlight crucial reference. For example, the instruction scheduling table in chapter 10 is a good candidate for mark anything not pOEP|sOEP with neon.. :)
You might wanna take a look at this one too - ARHM and more in HTML, downloadable too:http://amigadev.elowar.com/
As for AGA, well people are still bring out scientific measurement instruments to understand the details, here for example:http://eab.abime.net/coders-general/63227-low-leve l-workings-paula.html
..it's unfortunate that we never got a AHRM for it.. :( Perhaps, there could be tough! All you need to do is to convince this girl - who seems to be holding on to the holy grail, the actual blue prints - to release them! :Dhttp://www.youtube.com/watch?v=5uaDzF99a80
..and you'll get free beer for life from all of us.. ;D