Issues with Filevault, Tiger, Dock & Safari lost pref. settings & iPhoto...

Hope you experts out there can shed some light. Here's a recap-
Nov 05 - we turned on Filevault. Since then, for a month or 2, restarting takes just a few minutes longer and a flashing earth icon appears before the apple spinning wheel. This no longer happens. All seems fine until now.
Since Mon, I started backing up iPhoto library onto CD-R. No problem, though after burning a few CDs, "the drive failed to respond, unable to recover.." a few times, but after shut down & restart, finally ok.
I also noticed Safari settings suddenly went back to default by itself, so rechecked all pref settings; next time mac was restarted, same thing happened except more bad things happened:
A)- All bookmarks disappeared in bookmark menu & bookmark bar.
B)- iPhoto won't run & load pictures.
C)- Dock appeared as "default", all the application icons I previously added are gone!
D)- iMovie icon became a "?" on the dock.
E)- i Sync failed to sync due to "unable to login to .mac"; have a .mac a/c.
So far what I've done with Apple Support:
1- Under a test user, opened "Disk Utility", click "Repair Disk", i.e. the HD, but message appeared "No repairs were necessary". Test user then deleted, log off.
2- Logged back in under my username, dragged the existing dock .plist file to trash. But after rebooting computer using the "control", "apple", "p" & "r" keys simultaneously, nothing is fixed.
3- I've backed up all personal files, documents, and most of iPhoto Library on CD-R.
4- I then performed an "Archive & Reinstall" of the OSX Tiger (http://www.info.apple.com/kbnum/n107120) , with the box checked for Preserve Users and Network Settings". After installation, I also installed Software Update, but still nothing is fixed, i.e iPhoto won't run, dock is default, bookmarks on Safari are all gone, Backup to iDisk goes on & on for over 5 hrs & so I force quit, some files on iDisk can't be located right now.
5- Today, I followed the article in http://docs.info.apple.com/article.html?artnum=25695, created a test user again, pull the .sparseimage file, and "repair disk". It came back "no repairs were necessary". Closed Disk Utility, launched iPhoto, and it worked. I dragged a few pics, did some edits, and it was fine. So this is all good under test user. Does this process tell me the .sparseimage does not need repair and that it's not corrupted..?
6- Logged back under my user, dragged "com.apple.iPhoto.plist" on desktop, deleted cache file, restarted the computer, and launched iPhoto. It's been 6 hrs, and iPhoto is still "loading photos" with spinning wheel.
That said, this whole process really ruled out that it's not an iPhoto problem since it runs under the test user. It just won't work under my user name. Any idea or suggestion of what to do next... ???
Regarding the dock settings, I have removed the old dock plist file, and rebuilt a new dock. So far, logging in & out, restarting the computer did not affect it. Safari Bookmark collections suddenly have all these folders appearing with default bookmarks, weird, not sure why? iSync, half hr ago, started working, since I've set it to sync bookmarks, iCal, Address book, I just saw all my original bookmarks under "Imported IE favorites" in the Collections column, though they are organized quite different. So I assume iSync did it.
Here are some key questions:
1- Cause: Are problems caused by Filevault, or something is wrong with my OS before I did "Archive & Install" ? After archive & install, testing iPhoto under test user, and doint step 5 & 6 above, iPhoto still not load pics after a window appeared to upgrade thumbnails. Could filenames of some photos being long have anything to do with it or could it be other reasons?
2- Filevault failed to turn off after a few trials, with warning msg saying "filevault unable to turn off, unable to recover disk space". I found this article - http://docs.info.apple.com/article.html?artnum=25635. But don't know how to solve this problem.
3- iDisk - some files are lost, why?
4- Backup program - won't even backup to iDisk, pending for over 6 hrs, why? When I backup things to iDisk, do files get stored in the "Backup" folder or "Documents" under the iDisk icon in the Finder window ?
5- iMovie icon on dock is now "?", why? But then, I have iMovie HD. FYI - I upgraded to Tiger Apr 05, and iLife'o5 last July.
I hope I make myself clear, so if anyone has any experience or insight with my problems, I'd appreciate so much.
Thanks, Lucien
Message was edited by: Lucien Tenn

FB:
Welcome to the Apple Discussions. It seems that you're problem may be system related rather than iPhoto. I suggest you do the following:
1 - run Disk Utility and Repair disk permissions.
2 - reboot into Safe Mode (hold down the Shift key during the boot process). This will perform the File System Check (fsck). At this time check iPhoto and Safari.
3 - boot back into normal mode. If all is not well the download and reinstall the 10.4.6 COMBO updater followed by a permissions repair.
4 - If iPhoto is still messed up, use iPhoto Library Manager to rebuild the library. It will create a new library and leave your current one untouched. It succeeds where the normal rebuild fails.
My preference is to manually upload my photos to a folder on the HD either thru Image Capture or the Finder with a card reader - with iPhoto closed. Then if there's a crash iPhoto will not damage the AlbumData.xml file that is uses to record all the info on the imported files.

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