Media Encoder stops encoding but doesn't stop running!

What I mean by this is,
I set up a bunch of files to begin encoding into various different forms, carefully check the settings and hit the go/run/play button and things kick off nicely.
Using the Dynamic Link option to encode right out of Premiere Pro CC project sequences.
Trouble is that occasionally I will return to the machine to see that the current file is still encoding and it's taking way longer than expected. On closer look though, the thumbnail is not moving and the remaing time is just slowly going up and up.
AME shows that all is well and it seems to be working but actually nothing is happening and I have to stop the process, reload the files and start all over again!
Time is precious right now and I can't trust AME to do the job!
Anyone else had this experience?
Formats I am encoding into: H.264 for BluRay; H.264 for Web; Mpeg2 for DVD. Use a mix of VBR 2-pass for the physical discs and CBR for the web (as this is what Vimeo recommend). Shorter files of about 15-20mins or less seem to have more luck than any file over 30mins.
Any help greatlly appreciated.

Hi Thomas,
Thanks for your reply.
It doesn't appear to be the problem though. The encode I have running at the moment has been going for the last 13 hours and in the last two hasn't once got any further along!
Current elapsed time for a 30 minute film going to MPG2 is 13 hours and 18 minutes! Seems a touch excessive for just muxing!
Any other ideas? Would be really grateful for any advice as Adobe Media Encoder is becoming very unreliable and I have tonnes of encoding to do!
Many thanks

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Til: Hasse Christensen
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Oh hai!
I just got Adobe Master Collection CS4 and my Media Encoder doesn't work with Premiere CS4. When I try to export the file, Encoder starts normally. Then I click "Start queue" and Encoder starts loading. Loading takes almost five minutes, which is a long time, because my project is very simple. After that nothing happens, just a warning sign appears. When I click it open, some kind of log file open and it says:
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Hello, this is terrible problem, which i found in CS 6 softwares ...
solution i found only working, is uninstall and reinstall full package.. but it is not all,
you need to do BRAND NEW admin account in windows, and install it there.
that means, i could not export after repair from encoder in my original account never more (!!)   .. this is really terrible way how to repair this issue, because :
1.by reinstalling of software, client WASTE HIS TIME
2.by necessity to begin work in another windows profile you again WASTE YOUR TIME because of learning and migrating all other profile modifications, which i see really unaccpetable. Adobe means, this solution of repair is ok, and they did not do till today any steps of creating some "clever" solution.
I ask everybody, who will meet this issue in future, guys, please, complain about this situation, give "BUG Report" to them, and write "feature request" to them , in the way of creating some repair tool, which check actual "broken" connections between encoder and premiere, which refuses to "take material" from it and encode, and REPAIR it automatically..
   I am not IT, but ..does it seems so hard to create this ? Adobe IT developers should know their systems, and should create such utility tool really easy.
History of this problem and detailed description, HOW i did "repair" this. With wasting of app 2,5 days of my working time :
1. after repairing "error 5" problem , i solved it by reinstalling the suite from the new admin user profile (profile B) .
I continued my work on my normal working windows profile . (profile A)
Every cooperation (AE+Pr, export media via "queue" to Encoder) was working fine . . .
2. suddenly it stop working (without knowing any possible reason - i did not do installations )
and showed in error export log file :
"Could not read from the source. Please check if it has moved or been deleted."
3.repair via procedure(procedure "a"):
i did this procedure on the profile B (profile from last time installation of repairing problem error 5)
I did these steps :
a-uninstall master coll suite
b-i used Adobe cleaner tool (remove ALL)
c-removed raw directories in locations
•C:\Program Files\Adobe
•C:\Program Files(x86)\Adobe
•C:\Program Files\Common Files\Adobe
•C:\Program Files(x86)\Common Files\Adobe
•C:\ProgramData\Adobe
d-removed these links from registry file
•HKEY_LOCAL_MACHINE\SOFTWARE\Adobe
•HKEY_CURRENT_USER\Software\Adobe
•HKEY_LOCAL_MACH INE\SOFTWARE\Wow6432Node\Adobe
•HKEY_CURRENT_USER \Software\Wow6432Node\Adobe
e-restarted the PC
f- newly installed the Master Coll CS6
g-update the software
result of repair of "3" : problem still exists
4.Ok i find out after coordination with support, it should have been created ANOTHER NEW admin account.
4a:so i did the same procedure (uninstalling) in profile B
4b: and then i created brand new admin profile (profile C)for INSTALLATION of software
4c: restarted the pc (and did not updated it yet)
result :
==exporting of any sequence/raw/AE link video material from premiere via "queue" (Encoder) (profile C) : export WORKS
==exporting of any sequence/raw/AE link video material from premiere via "queue" (Encoder) (profile B) : export WORKS
==exporting of any sequence/raw/AE link video material from premiere via "queue" (Encoder) (profile A) : export DOES NOT WORK ! ! !
(in profile A, is possible to export some raw video material in encoder which is imported to it via "drag and drop)
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this issue should be some "broken" connections between encoder and premiere, which refuses to "take material" from it and encode.
what i expect :
to get from Adobe some repair tool, which automatically checks these connections and repair if necessary, without necessity of founding the new profile and reinstallation of whole software.. this is madness !
what i do NOT expect from Adobe:
to get from Adobe advice of kind : you have to reinstall full software in new admin profile. sorry , we do not know the solution, because we do not know, how do behave our software.

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Regards, Arie de Jong, Rotterdam

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for your information the following.
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Screenshot

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Sally Powell wrote:
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