Sometimes it's good to find the path of the file, i.e like if one of the programmes finds a file in such and such folder, you can note it down on piece of paper then re-boot into safemode and just delete it straight out no messing about.(i had an extremely bad pop out thing once that no programme could remove then had to go safemode which deleted it right away.)
My window's bars have vanished too sometimes but it's nothing to worry about most of the time.