Cool, perfmon should do the trick. It can be set to just log all day long at some particular interval (15 sec, 1min or whatever).
Disk queue length is a biggie to watch. It will spike from time to time but if it ever sustains at more than 1-2 per spindle ( >6 for a 4-disk raid array for instance) you may be having trouble.
If this box is Win2k or earlier be sure to run "diskperf -Y" then reboot once before you start. Otherwise the diskperf filter driver is not enabled to catch perf data coming off the top of the disk driver)