System Ninja is a lightweight program designed to clean your computer of unwanted junk, constantly slowing your entire system down. System Ninja features a fast and powerful file cleaner, Startup Manager, Process Manager, plus several useful tools.

System Ninja is designed to clean the stuff that is outside of the scope of CCleaner's winapp2 function.

If you use CCleaner, you might be wondering why should you use System Ninja? Here is the answer from the developer of System Ninja:

CCleaner finds unwanted files based on the exact location of the file, yet it doesn’t recursively scan the entire drive looking for junk. In contrast, System Ninja does not know the locations of the junk files, rather it scans the entire drive and performs a number of checks to decide whether the file is junk or not. This includes looking at when the file was last accessed, whether any processes are reading from it, what file extension it has, the file name and whether it is contained in any internal whitelist. System Ninja will never clean as much as CCleaner, as it was [built] in order to complement CCleaner, together they make quite a good team.

System Ninja is absolutely free to use. You can download it using following link:
Download Link