CSB uses many general dll files. And it stores all SITE information into the registry.
HKEY_CURRENT_USER\Software\GlobalSCAPE\CuteSITE Builder 3.0\WPProviders\OtherHost
Your CLEANER may be wiping out either the old dlls, or the registry info, recent list, or other files.
Your CSB may be using a dll left over from another program and when you clean it out, it breaks CSB.
Please note that when you remove programs, you are given the choice to leave dlls for other programs or delete them. If you leave them, extra files build up on the machine, many are never accessed again. But if you remove them and another program NEEDS them, you break the other program! Cleaners like to prune those files out. If you installed CSB AFTER another program that already used that dll file, CSB would depend on that dll file. And when you remove that program, it breaks CSB.
Registry cleaners can be DANGEROUS. Many ASSUME too much and can make many programs break by taking out key information, or removing "unused dlls" that programs need to function. Many trim out files you have not accessed in 3, 6, or 9 months. And then when you need to get into that video function, a website file, etc suddenly it does not work because it has been a while since you accessed the program. Many get overzealous!
Use a setting that will allow you to define acceptable, used programs that should not be adjusted in any way and stay away from a time-sensitive setting (program not accessed since....). If you can not define programs to be left untouched, you should not use that cleaner!
You are lucky that you have not disabled your computer in more vital areas with your CLEANER. I have had to work on machines that had bad damage because of them...!