AE CS6 won't export MP4. "Some of the required components could not be found."

After Effects CS6 (from Production Premium) running on 64-bit Windows 7 Enterprise SP1.
Processor: Intel Core i7-3930K CPU @ 3.20GHz
AMD Radeon HD 7900 Series video card
64 Gb Corsair Ram (DDR3)
Quicktime 7.7.4 Installed
Currently attempting to export a short (2 second) video based on the predefined "H.264" preset with the only alterations being that I want the VBR 1 Pass to target 3.5Mbs (though I've changed this with no difference in outcome) and I want the video to multiplex as MP4. I immediatley get the error prompt: "Some of the required components could not be found."
*Just tried using the 3GPP multiplexer and received the same error message. If I try to use the MPEG4 format I get an "unknown exception" error.*
I've exported literally hundreds of items as H.264 with a MP4 multiplexer on this machine with current hardware and software. And now...no dice. After Effects boots correctly (or at least it seems that way) though I think it takes a little longer than it used to (not sure if the system cache just needs to be rebuilt).
After Effects CS6 has all available Adobe updates. Quicktime 7.7.4 is also up-to-date. Video Card driver is up-to-date.
What could be going on? I'd prefer to skip re-installing this program. I've had to do this numerous times already with this suite throughout the past 12 months; really getting sick of the down-time during reinstall. Worth noting that I have closed the program, closed all programs, restarted computer multiple times.
I am currently going through my Adobe program files for After Effects. I am specifically looking through the 'Support Files' directory. A couple interesting things: 1. My 'MediaIO->Codecs' directory was last updated on 11/8/2013 (perhaps an AE update??) but each of the files within said directory have a last modified date of late September. Did something get wrongfully deleted in the hypothetical update? 2. In 'Media Core plugins->Common' I again have a last modified date of 11/8/2013, but again each of my files within the common directory were last modified late September. I have many expected .prm files but NO ImporterMPEG4.prm; should I have a MPEG4 specific importer file, or does the MPEG importer file do all of the work. Also, I have no ExporterMP4 (or anything of the MPEG, MPEG2, MPEG4 flavor). Should I have one of these?
Don't know if this last paragraph helps at all but my fingers are crossed.

Thanks Katrina for all your help.
I talked to an Apple tech support person. Actually, my call had to be elevated to the next support level. Joy. You are correct, there are multiple listings of the files in the error report even though there is only one copy.
The support person had me do a few things. Here is what eventually seems to fix things:
1) For the mp3's that DID copy but were listed as not found... Some files were duplicated so deleting the duplicate with the "!" was an easy fix. I found one file that I could search by song name in iTunes but could not find it by song name search on the iPod. Looking at the iPod playlist I found the file listed by the filename (not song name) and the file played fine. Then in iTunes I double clicked on the song name ("!" showing) and selected locate. I then pointed to the location on the NAS. Resync and now the name of the song on the iPod changed from filename to song name. The file was no longer listed in the error report.
2) For the m4a files that didn't sync... the problem songs appeared three times in a search in iTunes. Two of the listings showed the "!" next to the name. I deleted these two for each song that didn't sync and all transferred fine afterward.
Perhaps there is an issue with ID3 tags since I use filenames more than tags in organization. Still, I would think that iTunes would not get so confused or be a little more friendly with its errors, especially considering how long its been around.
Thanks again for your help. Looks like I have a manual way to correct this issue.

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