1. Try using System-->Utilities-->Disk Utility
then Repair Permissions.
2. Remove these files to desktop: Home-->Library-->Preferences
com.apple.quicktime.plugin.preferences.plist
com.apple.Safari.plist
These should be rebuilt by Safari later.
3. In Safari Menu "Reset Safari". Make sure you have your usernames and passwords in another file.
4. Delete Safari 2.0.4 to trash.
5. Use installation Disk 1 that came with your computer and use "Optional Installs" Select "Safari"
ReStart.
6. Open Safari and download the OS X 10.4.11 update. Forget the fact you already have it. Just do it.
http://www.apple.com/support/downloads/macosx10411updateintel.html
7. Install the update.
ReStart.
It should work.