EDIT: These are the 5D MKII files applied to the image. Sorry, I misunderstood your earlier request and posted 1000D files.
I would not modify the raw files with the DSLR_RAW preference, this can lead to/add to the confusion of getting good _c.fits files.
DSLR_RAW preferences are set for straight RAW conversion - no white balance, AHD etc. That's how I always do it.
I would take a hour and create new test Cal files----20 bias, 10 darks, 10 flats and see if you can Cal a Dark and Flat raw sub that looks closer to mine.
The dark files (40) were taken automatically in the same sequence as the lights at the same temperature, give or take a degree, which is well inside dark scaling capabilities.
The bias files (50) were taken under the same conditions, except that the sensor would be cooling down.
Similarly the flats, except on this occasion I used 3 only - this was experimental. Usually, I take 20 - 30 as in the previous files.
I follow the calibration and integration instructions at
http://pixinsight.com/forum/index.php?topic=2570.msg19019#msg19019 and acquire the raw files under controlled conditions.
To display the attached files, it was necessary to convert them to greyscale, debayer, background extract and STF.
I believe that I am doing the right thing here. Not sure about the pink in the flats, but suspect it has to do with my light box, which is an EL panel with a diffuser.
A wife impresser - are they ever impressed by our astrophotographical antics.