If you save your VI for 2009 I can open it and take a closer look.
As for the header, just write it to the file outside of any loops and before any of the results are recorded.
Assuming you append to the same file, it doesn't matter if you write the header right before the loop or 6 years before the loop ever takes place.
Example:
[-----------------------------------------]
[ ]
[ ]
[write header] ---> [ loop and record data ]
[ every 5 seconds ]
[ ]
[ ]
[-----------------------------------------]
As for the blank lines, you are likely writing empty strings with only a new line character to the file. This could be a result of writing faster than results are being computed, or you are wiring invalid strings to the Write to Spreadsheet File VI. Make sure that there will be a valid string before writing the results to file. If this is happeningin parallel, use some form of synchronization.
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