You can set up a custom deployment template to remove these files after deployment is run.
The setting is on the General tab > Deployment Actions > After.
Put a check next to 'Remove temp files'.
Then anytime you use that deployment template for deploying patches it will automatically clear out the C:\Windows\ProPatches\Patches folder.
Hope that helps!
Hello, one more question on the subject: Can everything in this folder be deleted in the interim to save space on a particular box until patching occurs next?