@awe4k:
Dont worry if the OS3.1 showconfig just tell you there is a 68040 in your machine. It is written in the days before the 68060 existed and wont be able to recognize a 68060, even if the libraries are correctly installed.
(edit):
You can use
WhichAmiga instead if you want a utility that is able to tell you pretty much everything about your Amiga.
/Patrik