Is there a terminator on the scsi bus ? There were two types, active and passive. If you have the scanner manual it should specify.
http://www.datapro.net/techinfo/scsi_doc.htmlAre you using the Nikon provided terminator and cable ?
If Ed is suggesting electrical interference, there are several possibilities - on the power leads, electrical fields, and scsi cable issues. It could be in the PC case, hence changing the location of the SCSI card might make a difference. Is the safety ground good through the electrical feed to earth good ? This is what the shielding on the scsi cable is tied to. Are you plugged into a power conditioner or ups that provides filtering of noise on the leads ? Are the PC and the scanner plugged into the same outlet ? Fluorescent lights are notorious bad actors. A/C Motors or generator based power also. PC power supplies may tolerate more noise than the scanner power supply. There are several cases i have read of people having issues with flatbeds that went away when the power was cleaned up. If the scsi cable has termination problems (wrong type, missing) or broken shielding - that could cause pickup of noise from external sources since the cable acts as a radio antenna. Poor grounding could cause it to "float" and change change reference signal levels. The internal power supply in the scanner could also be having issues or internal shielding has failed.
Without an oscilloscope and scsi breakout box it would be difficult to pin it down if it is in the scsi.
Does it have this issue on the Mac ?
What was the scan orientation - L to R or Top to Bottom ? Is that at scanner optical of 2700 PPI ? Does the same pattern occur at lower multiples of two resolution ? Is it there on a monochrome scan ?
Try ASPI 4.6 just for grins (above link). Some drivers had compatibility issues with more recent versions. The SF software did make use of the Nikon drivers in the past so would be dependent on the ASPI layer. It is interesting that you say the pattern is not as bad with SF. Hopefully that is not just coincidence. You should have had to load the Nikon driver library to run SF unless they included the maid modules in Ai6.6. i know they did not for my CS4000 and old LS-20. There may have been some low level noise reduction being done in the Nikon drivers, but that is just speculation. Tech support at Lasersoft could tell you.
Frank