Hi,
Do you re-run the swat.exe after making the changes to the pcp files?
It is a bit unclear what you are doing. The "cure" for this is:
- write all your model files (including tmp, pcp, etc.) thru your interface (ArcSWAT, I guess);
- go to the TxtInOut folder and make the corrections on your files (replace the -099.0 to -99.0). Save the files.
- run the swat.exe either manually or thru the interface.
- examine the output. Check if you have the correct precipitation in your output.std or sub.
Hope this helps. Best,
Natalja