William,
The reason your saved data contains a lot of repeated data is that while the Reduction VI outputs data on every iteration it can only output
valid data on every fifth iteration. The reason for this is each loop iteration provides it with 200 new data points. With a reduction factor of 1000 it needs 1000 new data points to produce 1 data point as output. Thus for 4 out of 5 loop iterations it is merely outputing the stale compressed data point as it waits for enough data to calculate a new compressed data point.
If you only want LabVIEW to save the valid data points wire the
Data Valid output of the Sample Compression VI to the
Enable input of the Write to Measurement File VI like so:

I hope this helps.
Regards,
Simon H
Applications Engineer
National Instruments
http://www.ni.com/support/
Message Edited by Simon H on 02-01-2007 02:11 AM