For all intend and purpose, the 5D and the 1Ds have the same resolution because of the heavier AA filter in the 5D. It's not surprising the 1Ds produces almost equal images. At normal ISO rating, the 5D may have a slight edge as far as dynamic range, but the 1Ds excels in landscapes and detail. Personally, after a week using a 5D on a job, I'd rather have had an older 1Ds. I hated the handling, focusing and RAW files from the 5D.
You might try processing the 5D images with Canon DPP. I've used a half dozen conversion programs, and only recently started using DPP because it's the only program that can deal with the sRAW files from my Mark III. I have a new appreciation for the program. It's a little clunky, but produces very sharp, clean files. You may be happier with your 5D images processed with DPP.
Nemo