Hi,
As you are running CodeXL on Intel CPU, only Time Based sampling will be available apart from custom profile (this is used to set customized sampling interval).
Other CPU profile configurations i.e. "Assess performance", "Cache Line Utilization", "Instruction Based" etc., will be available only on AMD based CPU/APU's.
Using CodeXL outside VS (as a stand-alone) is straight forward.
In the "Project Settings", did you set "Kernel Source Files Directory" to the location of your ".cl" files?
For any CodeXL related issues, please post at the following forum for quick response.
http://devgurus.amd.com/community/codexl
Thanks,
Kalyan P