Ken,
First let me say that we are not yet processing MODIS Terra data. We DO have the entire mission for MODIS Aqua, though, and these are available via
subscription. There are 288 granules per day, with three states: Day, Night, and Mixed. If you are processing ALL data for a day, you should expect 288 files. However, if you are only interested in the daytiime granules, the number will vary about an average of 130. These numbers are for the entire globle. Assuming your subscription is not for the entire globle, and if your subscription is set for refined processing, you can expect that all available granules for a given day have been received and processed. There will be exceptions to this, but in general by the time the refined processing is kicked off, we have all the data we'll get.
Data are kept in the subscription area for 3 days. To avoid downloading files multiple times, try using an ftp client like
ncftp, which by default will not download files already retrieved.
Product specific metadata will not vary between files, so the slope and intercept for a product in one file will be the same in all files.
Regards,
Sean