Problem with interlacing when exporting with Media Encoder CS 5.5

It seems that when exporting a Video with interlacing in Premiere 5.5 with Media Encoder 5.5, the exported video is still interlaced although it is rendered with progressive settings. When rendering with the same settings through Premiere 5.5 without Media Encoder 5.5 (Button "Export") it is correct and progressive.
I tried this with H264 and MPEG2. Anyone experiencing this problem too?
Thanx!

Were the field interpretted correctly in the first place?  Even if you think they are, try reversing them.  I've just been through hell doing something similar with a mishmash of client material from around the world.
In some instances I switched field order (In the File>Modify) although it didn't seem logical.  In others, I used AE CS5.5 to added the Reduce Interlace Flicker filter.

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