Okay, this time I tried to delete unwanted cookies (left column) manually one at a time and was asked if I wanted to close Chrome.
I answered yes and proceeded to delete first one. I then restarted CCleaner and ran cleaner.
The analysis showed that this time history and cookies were not skipped and 353 cookies were deleted along with 6 history files.
Except when I look in the cookies I don't want column, they are still there!!!!
I have a screenshot of results if you'd like to see it.
edit: Have just gone through the whole process again and Voila! this time the cookies and history have gone and the cookies column is empty!!?? Should mention here that I did restart CCleaner and also rebooted my computer.
I suppose I'll keep monitoring and see what happens.