Fonts missing in HyperStudio

We use a program called HyperStudio in our lab. It is a multimedia program for students. It uses text in 'Text Objects'. We have been experiencing missing text from the object on the launch of the program. A restart of the computer fixes the issue. The developers cannot replicate the issue so they think it may be something on our computers. We have replaced all fonts, run font validation, font finagler, rebuilt permissions, run disk warrior and still the problem persists. Does anyone have any idea what would cause a font issue.
On another note we had some issues with students not being able to use the log out in the apple menu, the replacing of the fonts seems to have fixed that. Could be related.
Thanks for your expert advice in advance.
Message was edited by: Jeff Peach

Perhaps some caches, I'd Applejack...
http://www.versiontracker.com/dyn/moreinfo/macosx/19596
After installing, reboot holding down CMD+s, (+s), then when the DOS like prompt shows, type in...
applejack AUTO
Then let it do all 5 of it's things.
At least it'll eliminate some questions if it doesn't fix it.
The 5 things it does are...
Correct any Disk problems.
Repair Permissions.
Clear out Cache Files.
Repair/check several plist files.
Dump the VM files for a fresh start.
Then do step 3 for every user.

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