I get the same problem, compiz or not makes no difference (except for
the extraneous windows one gets with compiz.) I'm attaching a
screenshot. This is on an intel g35 using the intel graphics driver,
compiz is turned off. Installing the t1-xfree86-nonfree (IBM Courier
font) package makes no difference.

first line: input as it is
second line: selected input as it is to make it visible
third line: changed the font to bitstream vera sans


** Attachment added: "unreadable fonts in mathematica"
   http://launchpadlibrarian.net/13838630/mathematica.png

-- 
Unable to input text to mathematica 6.0.1 in Hardy (regression from Gutsy)
https://bugs.launchpad.net/bugs/197163
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