Nothing but beachball

I'm running an iBook 1.33Ghz/1.5Gb RAM/10.5.2.
I cloned my installation of Tiger to an external and did an erase and install of Leopard earlier this week and applied all patches and updates. The system worked fine for a few days, but last night I started getting a lot of beachballs. I was working on an assignment and every half an hour or so, the entire system would stall and I'd be able to move my cursor, but I wouldn't be able to do anything else. Force-quit didn't work on anything. The system would resume about five minutes later, but would then stall again. Every time the stall happened, the hard drive would be making sounds like it was seeking: whirr...whirr...whirr...whirr...whirrrrrrrrrrrr and then repeat.
I shut the system down hoping it would settle over night, but booting up this morning, I get to the grey logo screen with indicator and would get the whirring sequence again. I left for staff training and when I got back four hours later, it had finally managed to get to the login screen, but I still had a beachball and everything was stalled again.
I booted from my Tiger clone, ran verify and repair disk, which came up with no errors. I can still access the contents of my iBook's drive when I'm booted from the clone. I've uninstalled all of the Unsanity stuff I had before, so I don't think that's it. I had installed a 1Gb stick of RAM from OWC prior to installing Leopard, but it ran fine with Tiger.
Any clues?

OK, so the hard drive noise is more or less normal when booted from the Tiger clone, but has a lot of weird whirs and noise when booted from Leopard? That is very odd! I almost wonder if your Leopard OS has somehow gotten corrupted? You wouldn't expect that so soon after an erase and install, but I suppose it is possible.
Also, I assume the hard drive has adequate free space--like 15%-20%?
Somehow I seem to remember reading about weird hard drive noises with Leopard in some particular situation, but for the life of me, I can't remember just what. But I think it was caused by some sort of software situation. Can you think back to any software installation which might have preceded all the freezing and hanging?
Are you running Time Machine? If so, I wonder if you could reinstall the OS and restore from a previous version that would be before all these problems started?
Unfortunately, I'm not really a software expert. I responded because I thought running the wrong version of Disk Utility might have been part of the problem. Or that maybe the hard drive was. But it sounds like the hard drive is OK based on it working properly with the Tiger clone.
Just saw your latest post in my email. Running the wrong version of DW might be like running the wrong version of Disk Utility. I think these all need to be matched and compatible with the OS. The earlier version of DW will probably repair the directory, but not as it needs to be repaired for Leopard. I believe each version of the OS has its own unique directory, which must be repaired with the proper version of the repair utility. It sounds like if you want to use DW , you will have to use version 4 with Leopard. Same deal with Tech Tool Pro or Tech Tool Deluxe--you need to run the Leopard compatible version.
Don't really know just what to suggest next. It almost seems like there is some sort of incompatibility issue somewhere. You might look at crash reporter to see if there are any clues as to what is causing the problem. (Finder>Home Folder>Library>Logs>Crash Reporter). If there is some particular program showing up a lot, you could try checking it for compatibility with Leopard and maybe reinstalling it. There could also be a .plist that needs to be trashed, but I know nothing about these, and it would best if someone else advised you about these.
Sorry I can't be of more help.
Good luck!

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