Just to update and clarify some.
The problem with the temp folder seems to be caused by the option to delete files older than 48 hours. If I uncheck that option than run analyze it lists all the files in the temp folder and the correct size of the data to be deleted. On the other computer I installed CCleaner on that is not a problem. Strange
As for the Firefox cookies I will try and explain that clearer. When I select Firefox cookies and than select analyze it lists the cookies but says they are removed. Looks like this, Removed Cookie:name of cookie. It does not delete the cookie (nor should it since I selected analyze not run). If I do the same for IE cookies it lists the full path to the cookie folder and the name of the cookie to be deleted and size. Also it will list the total amount of data to be deleted. Doesn't do this for Firefox cookies.