Forgive me if I ask you to try things you have already tried, but here goes....
Note: on my machine with a Focusrite Scarlett 2i2 I get best results when set to at 44100, 24bit, 256 samples
Latest drivers (graphics and Focusrite?)
Fully patched Windows
Core Parking off?
On Board sound disabled?
Disable speed step?
Plug Focusrite directly into PC USB, not via USB Hub?
Disable power management on Root hubs?
Try renaming (don't delete) your AUD.ini file and then let Sonar rebuild it
This file is at %userprofile%\AppData\Roaming\Cakewalk\SONAR Platinum
Those are quick "off the top of my head" suggestions.
I also have enabled a PCI ASUS sound card which I also set to 44100, 24bit, 256 samples.
I have my realtek onboard card disabled in the BIOS
Some users have seen smoother results after disabling their wireless adapter.
I use enabled wired Ethernet 1gbit/s