AME Export from HDV source: Pixel aspect ratio squeezed in Queue; ok in direct export.

I have some existing HDV footage that was converted to Cineform codec (CFHD) in an .avi file that I need to export.  My target requires Windows media format (.wmv Window Media video 9).
My output settings are the following:
640x480, square pixels, 29.97, lower, VBR, 2 pass unconstrained, 800 kbps.
When I export these files in a sequence directly from Premiere Pro CC (Export button), the pixel aspect ratio looks correct. (It looks ok in Premiere and in the Premiere Export window, too.)
When I export using the Queue button in Premiere to AME CC, the video renders out squeezed, as if the aspect ratio is ignored.
I can also see the squeezed video in the AME preview window when the file is rendering.
This worked OK previously in Premiere 5.5.
Is there a setting that controls this and allows normal rendering from the Queue?
Using the Queue is much preferred to avoid bottlenecks in workflow.
System: Windows 7 enterprise 64 bit, Lenovo W510, Core i7, 16GB ram.
Nvidia Quadro FX 880M
Premiere Pro CC: 7.2.1(4)
Adobe Media Encoder: 7.2.0.43 (64-bit)
Not sure if I am using the Mercury Playback Engine GPU Acceleration.
Thanks.

I'm using CC, updated today. (see system info at top).
I'm starting to wonder if the codec info is not read correctly when using the Queue (Cineform codec).  I took your suggestions and created a new sequence with one clip and used the same settings.  I opened the export settings window in two separate ways:
Export settings in Premiere (Ctrl M). All is good in the Source tab. PAR is interpreted correctly:
I sent the export to the queue, and from the job in AME clicked the "Custom" link to retrieve the same settings window.
However, the Source video PAR is not interpreted correctly:
This must be related to why the render from the AME queue is not correct.

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