Holy s**t is any program more annoying than CCleaner? Viruses cause less of a nuisance than this f***ing piece of s**t software. Shame it used to be a good program a long time ago. Uninstalled.
Could you be a little more specific on the problems that you are experiencing using CCleaner? Too many notifications? For example, if you have Smart Cleaning on, but have not told CCleaner what you want it to do when a browser closes, it will ask you - this can be configured for each browser under Options > Smart Cleaning