D300 RAW files converted to TIFF Anomally

Ok....heres the thing! I recently spent 2 months in Argentina working on shootshorses.com. I used a Nikon D300 RAW (12mb) and downloaded everything (70 gig) to an 80 gig ipod. Aperture at this point could not read the nikon nef file so viewed them in nikon view nx, picked 50 or so I wanted, converted to 16 bit tiff on desktop and imported to Aperture. (now 77mb files)
When upgrade for aperture 2 came out, installed and attached ipod and imported all the work. Started working on some of the same images in the new projects in order to uplaod more to web site. wanted to lift and stamp changes from tiff files and apply to freshly imported raw duplicate files then delete much larger tiff files. Point...the identical stamped changes make a completely different image.
Checked the new raw file against the previous tiff file with no adjustments on either, on screen (apple 30 inch) and the tiff files blow the raw masters away for depth and sharpness. do not understand why as they are both the original Raw file from the ipod.....Question is, why is this? Suddenly the raw files really look digital and the tiff files have a depth that approach the work done on the kodak DCS pro.... and that is a bench mark!
If anyone has any explanations it would be great. Many thanks
A perplexed David Sinclair.

AHHH... . amazed there is such a notable difference.... simple really. Only problem ,natural I suppose, Capture nx being same manufacturer, but makes me ask what else might be missed in the way of picture quality with Aperture. Many thanks for your answer

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