If you want to remove metadata but have it around in backup form just in case you need it again, the best thing to do is create an export package with unneeded items and then delete those items from the repository. After deleting the items, you'd want to follow the same approach you did before (backup with REORG=YES, MetaCleanse). Export only covers a subset of the metadata object types, however, so this isn't a general solution.
Attempting to get below the 3 GB mark and stay there is a bit like trying to keep you Inbox clean - it's only going to help for a little while. If you're nudging up against this boundary, we'd strongly recommend an upgrade to a 64-bit OS and to 9.2. After doing this, you'll never face this problem again.
Thanks,
Tim Stearn
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