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Regardless of platform, upgrading from 4.0 to 4.1 is very well known to cause problems. Heck, you should be backing up your database before you do any patching or modifications to the database engine. Quite simply put, I lost a couple weeks worth of data in January because I forgot to back-up a wiki database. Loses were minimal... a documentation wiki on a barely started project, but yeah, I can imagine if you're asking about this, you're running the risk of major losses if something goes wrong and you don't have a back-up.
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