MalwareBytes is not a registry cleaner.......MalwareBytes is an excellent choice of antimalware software ......If you use the free edition you must update and run it manually eack week.....You can compliment Malwarebytes with the use of Superantispyware.....Make sure you run one antivirus program, with realtime protection in addition to the malware programs....Be sure to run a firewall as well.
Avoid registry cleaners,....... Disk cleanup and defragging when necessary is all you need to do.