Comentário oficial
We just checked the logs and it appears that your job didn't get posted as an NDVI job. It is possible that you hit "Close" instead of "Save" on the NDVI dialog which will cause the "Process as NDVI" checkbox to become unchecked. We will try to address this in a future release, but for now the NDVI isn't showing up because the NDVI settings likely were not saved properly.
Your stitch actually looks pretty good, but I wouldn't expect your NDVI results to be correct anyway. There are groups/companies out there that have been telling people that by collecting more IR and less blue, you can accurately discern crop health. Without a proper calibration and scientifically based "white balancing", you can't get REAL NDVI numbers. The normalized ratio processing can only be done accurately when there is proper separation between the collected wavelengths.
There is a reason that TetraCam and MicaSense cameras cost multiple thousands of dollars. These cameras are properly built to collect data that is sufficient for comparative spectral analysis. Throwing a blue filter in front of a normal Bayer pattern sensor and removing the IR blocking filter is not enough.
The processing that Maps Made Easy applies on it's NDVI processing is strictly in accordance with the published works. If your white balance is off, you can do a little bit of trial and error with the color map to get it to show up to your liking, but that doesn't change the fact that the raw data isn't correct.
Sorry to be the bearer of bad news, but there is so much bad information out there regarding this topic it is crazy...