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Is there a newer version of the NDURE software, and if so...how do I upgrade?
Yes. Download it and follow the instructions.
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Would it be a wise decision to upgrade to XBMC? Does it let me change all the stuff I can change in UnleashX like LED and fan speed?
Wise is subjective! I use UnleashX as my dash and XBMC as an app, because UnleashX gives you password protection to deter people from fiddling, whereas XBMC doesn't. XBMC has similar fan control to UnleashX, where you can set a fan speed, or set a temperature and the fan is adjusted to keep the Xbox at that temperature.
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Why does there seem to be like 6 partitions when I view my storage info?
Because that's how it was designed! Have a look here. On top of those, D is the DVD, and when you run XBMC Q is a virtual drive that points to the XBMC home directory.
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What would be the easiest way to completely remove this softmod? Basically I want to revert back to a completely virgin xbox, so I can upgrade to a 140GB HDD...then re-install the softmod on the new HDD. The other way, keeping the softmod, seems way too complicated for me to want to mess with.
. Don't bother - you achieve nothing by resetting your disk back to stock!! Just use the eeprom from your Xbox, xboxhdm, and the stock c from Slayers or CASH to build the bigger disk, then softmod it. Alternatively, use the eeprom, xboxhdm, the stock C from Slayers / CASH, and Kingroach NDURE 3.1 to softmod the new disk as you build it.
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How do I remove a game I ripped to the HDD?
Delete it using file manager!