...white logo?
...would have been set to overprint in illustrator inadvertently...
...the problem is that white is not an ink, if set to overprint it will not output (this does depend on a print providers rip set up in dealing with white overprints)...
...in illustrator choose window > attributes, select the logo and wil probably have overprint active (with a yellow symbol)...
...illustrator does warn when you set a white object to overprint, however it doesn't when the object was once another color...
...this I have raised with Adobe years ago, but unfortunately they haven't reacted to this problem...
...illustrator, acrobat and indesign all have overprint viewing options to see if artwork has been created with overprint whites (and other colors via the separations window (not illustrator CS3, you need illustrator CS4 for that)), acrobat pro also has the ability to fix these problem areas by using the preflight feature in the advanced options...
...it catches many people out, even the pros involved with prepress...
Andrew