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Ok.
The 1100D, like the 550D, doesn't like imaging when the temperature is above 10C. Once the temp drops, those streaks of thermal noise will start to fade. Once it gets down to 0C your photos should become silky smooth.
With the 550D I remove most of the streaks in CS3 using the Carboni Action "vertical banding noise reduction". I have to rotate the image to make sure the streaks are running the right way.
re. flats
try just taking one set, don't rotate the light box.
You should be able to see the dust bunnies on the individual flat shots.
For example, my flats are generally taken at the same ISO I shot my lights with. The exposure time I use is around 1/250th - 1/350th of a sec.
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