Well, I failed to mentioned that in some of the pod chambers that were browning and "soft", the seeds were rotting in some of them. Which is why I now feel it necessary to remove the seeds when I see the brown chambers. I do believe it has to do with moisture or irrigation (perhaps directly on certain areas of a pod).
Nylon footies can be purchased at Walmart (their brand) in small plastic clear eggs (not exactly egg shaped but rounded with a lid). Very cheap! But I must warn you .... if you get a lot of rain or irrigation, the nylon footies can cause moisture to form around the seeds and cause rot. I've had it happen to me when I used to use them in the past.