I was thinking oxidation but said fermentation anyhow. Glad there are experts here as I am certainly not one.Strictly speaking from my experience with cuban cigars...
Sure, with fresh cigars there might be an ammonia smell and it usually goes away in a given amount of time. But, the cigars don't ferment at room temperature; they do however oxidize (oxidation), where oxygen lets the leaves merry together. You stop the oxygen or greatly reduce the oxygen that gets to the cigars and you change the way they age.
As for crush problems that will only happen if you use a food "saver" and nothing rigid like a box. Dan at NHC uses a food vacuum to ship cigars his cigars with boveda packs. If you had the hardware you could create a serious vacuum and remove all air from a space with cigars in it with no worries of crushing. I wonder what effect that sort of vacuum would have on the tiny air that is probably trapped in the leaves?