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registry, registry_file, cache_bootstrap and cache_path are not there in D6...
so ran the following code on D6.

UPDATE system SET filename = REPLACE(filename,'sites/all/modules/contrib','profiles/cb/modules/contrib');
-- Update custom modules location
UPDATE system SET filename = REPLACE(filename,'sites/all/modules/custom','profiles/cb/modules/custom');
-- Update themes location
UPDATE system SET filename = REPLACE(filename,'sites/all/themes','profiles/cb/themes');
-- Truncate cache
TRUNCATE cache;

but somehow the theme entry from system table vanishes. Any pointers?