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I don't experience the same behavior running Linux Mint 12 LXDE. As long as calibre isn't configured to view the filetype with its internal viewer, it opens fine in whatever is configured as the default app for the system. ODT, PDF, RTF or whatever. Granted... I only ever use one desktop environment at a time per system, so I don't know what (if any) quirks might arise from switching between multiple DE's on the same system. I just know the issue doesn't seem to be endemic to LXDE itself.
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