I have a canon dr-9080c scanner and it is having intermittent problems scanning the entire page of a document. for example-- 100 page document --page 1-75 scans perfectly--page 76-100 only the center of the document scans, about 1 inch of the margins do not scan.

The Canon DR 9080C is a 'contact' scanner. There is no optical lens, instead it uses a technology called "Contact Image Sensor' or CIS. The page to be scanned must be close to the glass for a proper image. This is achieved by a full-length rubber roller just above/below the scanning module. The roller is spring loaded and in case it gets stuck, there wont be enough pressure on the document to keep it close to the glass. ensure these rollers are moving smoothly and if required clean them. The rollers are on the opposite of the Scanning module.
S. Mohan, Chennai, India

Duplex scanning, Color Scanning and high-density scanning (600 dpi) cannot go with long documents like 11x17. Change the scanning mode, try one side at a time or reduce the resolution.
S. Mohan, Chennai, India

CapturePerfect ver 3 is on chargeable basis! You can download ver 2.0 from http://software.canon-europe.com/software/0022439.asp?model= Though this is listed under Canon DR 5020, it works fine with DR 9080C. DR 9080C has very intelligent features and ver 2 works fine. I do not know if there are addl features with ver 3.0. I have used for scanning over 500,000 docs.
S. Mohan

This must be a vertical line and appearing at the same location on all drawings! Please clean the glass thoroughly. It must be dust particle sitting on the glass.
S. Mohan. Chennao, India

There is a paper sensor just under the rolers in the lifting tray. Clean the area thoroughly with a damp cloth. Keep some sheets and try ]count only'. If it works then the sensor is okay, then you can try your scanning. If it is not sensing paper, check the sensor or connections to the sensor.
S. Mohan, India

I could not understand your problem clearly.
If I am right, you are saying that if you scan 100 pages, about 80 pages are scanned properly and the there is problem with the balance 20. Clean the rollers throughly with a damp cloth and also the ****** rollers. Please swithc of the scanner when you are cleaning the ****** rollers as they are in a 'locked' position in power on position.
If your problem is different, please explain it clearly.
S. Mohan, India

Though I've never seen this on any scanner, I can imagine it being a reading glass out of place. This could cause a weaker reflected image overlaying the direct one. Look at the top & bottom glass strips in the transport area. They should look level & unbroken.

U should select 'Scanners maximum'  and try this. I have found this does not work midway, after some scans. So close and exit out of captureperfect, re-enter and try. This should work.
S. Mohan

I have the same model Canon DR-9080C scanner which I recently acquired and I'm trying to figure out how used it is. I see many referrign to a counter. I see the big LCD on top front, but how do you know how many total pages have been scanned through it? I read somewhere there is a mechanical scanner. Is this true?

This has something to do the brightness chosen. In the manual mode, if you choose a dark output, the output will have tis area also; if you choose, lighter output, it will omit. In the auto scan mode, the scanner decides what is the best output.

S. Mohan