What version of Safari?
It sounds like it's getting stuck & not completing.
Not certain which OSX that Mac is running, but check for a compatible version of AJ.
At this point I think you should get Applejack...
After installing, reboot holding down CMD+s, (+s), then when the DOS like prompt shows, type in...
Then let it do all 6 of it's things.
At least it'll eliminate some questions if it doesn't fix it.
The 6 things it does are...
Correct any Disk problems.
Clear out Cache Files.
Repair/check several plist files.
Dump the VM files for a fresh start.
Trash old Log files.
First reboot will be slower, sometimes 2 or 3 restarts will be required for full benefit... my guess is files relying upon other files relying upon other files! :-)