INCLUDES partitioning and formatting the drive when installing the new OS. This eliminates all the existing files on the partitions.
Looks like you are not doing that so the files would be found when scanning.
Also, you do not mention the utility you are using for the scan. You may be getting false positives depending on the exact file located for each "threat". For instance POWERREASCHEDULER is being noted as a rogue application but Microsoft indicates it likely isn't -
The following were still present on my laptop after doing a custom clean install of windows 7 to replace the windows virus riddled laptop I had. The clean install did not get rid of everything, this may be as the clean install took from the old windows xp certain system files and kept them when installing the new windows 7. im not sure why but this is what was found after the first scan: