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Try using Amazon's free Kindlegen utility to convert from epub to mobi. Specify standard or HuffDic compression and -- here's the key -- include "-dont_append_source" in the command prompt instruction. For me, including that last (undocumented?) option reduced file size by approximately *half*, with no effect that I can see when reading the ebook file in calibre.
Tried this with an epub I had shrunk from ~63 MB to <5 MB by lossy compression of jpg images. Normal conversion in calibre gave me a mobi of ~12 MB! Kindlegen without appending source gave me a mobi of ~6 MB.
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