Fonts Not Embedding Consistently with PDF Export - Inconsistent Fix and Unknown Cause

I have had ongoing problems with PDF export from FrameMaker. Sometimes the correct fonts do not embed in the PDF and Times New Roman is substituted. The problem appears and disappears and is causing me a lot of lost time and frustration.
I am running FrameMaker 9.0 fully patched on Windows 7 Ultimate 64-bit. I have seen people complain about this issue and am familiar with the suggested fixes. However, the exact cause and solution eludes me because the problem continues to recur and I am only able to recover with guesswork and workarounds.
Initially I did the following:
ACROBAT PDF SETTINGS
- In the printer properties for Adobe PDF settings I turned off the option "Rely on system fonts only; do not use documents fonts."
ACROBAT DISTILLER SETTING
Under "Font" Settings I changed the following:
- Under "Settings/Font Locations" I added the font folder for Technical Communication Suite 2.0 and made sure all the fonts existed there and in the Windows default font directory.
- Under "Settings/Edit Adobe PDF Setting/Fonts" I changed the following options:
- Selected "Embed all fonts"
- Under "Embedding" chose "Always Embed" for the target fonts.
I tweaked these settings for hours and got no results. Then I rebooted and the problem had magically disappeared. I fixed the issue in the same way on another machine and the results were permanent and I was just happy to finally have it fixed, But this time it didn't last.
I should note that upon reboot, when I used the stock "PDF Job Options," the correct fonts still embedded, leading me to believe that the fix had nothing to do with the changes I made to Distiller settings.
After reboot I generated PDFs with the correct fonts embedded. Then I shut down FM, but left the system running. The next morning I opened FM again and the same problem occurred.
So I rebooted again -- and the problem disappeared again. I therefore thought maybe the issue fixes on reboot but recurs when you shut down FM and reopen. So I shut down FM again and reopened, but it is still working fine for the moment.
I verified that the Adobe PDF settings under "Printers & Devices" that I turned off (Rely on system fonts only; do not use documents fonts) remained correctly unchecked through all these changes.
I would really like to know why this happens so I can resolve it permanently and avoid more lost time.
Thanks in advance,
Douglas

The common theme I'm seeing here is that the setting edits you make in
Distiller through the FM "Save As PDF" option don't seem to take effect.
Do you know if that is true or could you elaborate on the notorious nature
of this method for me?
>
There are too many potential and transient problems to list. The only thing
I can say is that I've been an active member of the FrameUsers listserv
(http://lists.frameusers.com/mailman/listinfo/framers) since FM version 6.0,
circa 2001, and probably 95% of the PDF problems reported there have been
fixed simply by using print to Adobe PDF (or to Acrobat Distiller in older
PDF versions), instead of using Save as PDF. Common advice there has always
been to avoid Save as PDF and even some Adobe employees have recommended
against using it. It doesn't matter which FM version.
The once-busy FrameUsers listserve has been fading away, recently, as this
new Adobe forum software allows reading via e-mail, and attachment of
screenshots. Even if you look around on this forum now, you'll probably
find that there are two main fixes for issues with PDF. One is NOT using
Save as PDF, which seems to fix a whole bunch of issues. The other is the
use of a Windows hotfix to squash a Windows OS bug that causes dropped
characters in PDFs.
In the rare instances that someone has issues with printing to PDF, they are
almost always related to errors in settings. Or occasionally someone can't
embed fonts because they are trying to the embed the virtual fonts that come
with their printer driver instead of fonts that have actually been installed
on their computer. (The fonts are hard-wired on their printer, so the system
can use them but not embed them.)

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