Cure All Problems
After all else fails, format the HD. Then prepare a clean install of Win98 SE by watching all stages. Install drivers then go online and update Win98 fully prior to doing anything else. Then update Explorer to 5.01 and then to 5.5. Then defrag the HD.
Install all applications carefully and defrag after each installation. Clean off any unwanted files after each installation as well.
Then re-install all the data.
This is called a clean install and is the only system that truly provides satisfaction. Bear in mind that a fix here and there almost always causes a problem somewhere else in your system software.