Clean install and still spotlight problems

I've been having several problems with my system, including problems with spotlight, and so I decided it was time for a clean install. After a clean install to 10.5.2 and then a combo update to 10.5.6, spotlight still is not working correctly. I opened my sys prefs and saw that right after a clean install, there were still settings in my "privacy" list for spotlight from my previous system. I'm assuming then this info is somehow stored locally on each drive? Does that sound right?
Spotlight starting indexing like normal, but it got to the point where it hangs on 7364159 hours remaining. This was the same issue I had before the clean install.
so, two questions.
1- How can I get spotlight to work? I've tried "spotless" and others and it never seems to work correctly.
2- I've got 4 internal drives, could it be that the drives are two large for indexing? Seems strange but at this point I can't figure out why indexing never finishes.
Stock 320gb
seagate 500gb
2x seagate 1.5 TB
I really would appreciate any suggestions. I've been really frustrated that spotlight hasn't worked since buying this new Mac Pro.

I did as suggested and enabling them one by one allowed me to index my system drive but as soon as I started on the 2nd drive (seagate 1.5TB) it started doing the same kinds of things. It looks like it's working and then gets to the same point and the number starts to go up and the status doesn't move. I ran lsof | grep mdworkder in the terminal and I got this
mdworker 181 user cwd DIR 14,2 1258 2 /
mdworker 181 user txt REG 14,2 340640 212542 /System/Library/Frameworks/CoreServices.framework/Versions/A/Frameworks/Metadat a.framework/Versions/A/Support/mdworker
mdworker 181 user txt REG 14,2 1028096 849446 /Library/Caches/com.apple.LaunchServices-023501.csstore
mdworker 181 user txt REG 14,2 10244016 192561 /usr/share/icu/icudt36l.dat
mdworker 181 user txt REG 14,2 1059792 217357 /usr/lib/dyld
mdworker 181 user txt REG 14,2 136200192 585600 /private/var/db/dyld/dyldshared_cachei386
mdworker 181 user 0r CHR 3,2 0t0 184107396 /dev/null
mdworker 181 user 1w CHR 3,2 0t0 184107396 /dev/null
mdworker 181 user 2w CHR 3,2 0t0 184107396 /dev/null
mdworker 181 user 3u KQUEUE count=0, state=0x2
mdworker 181 user 4r DIR 14,2 272 24898 /Library/Spotlight
mdworker 181 user 5r DIR 14,2 714 152 /System/Library/Spotlight
After leaving it for a while, it doesn't seem to change at all. This is after it had started indexing the drive and then I restarted my computer. Once restarting, it has the spotlight window that says it is calculating the time and it doesn't do anything.

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