The feeds can only be disabled one of two ways... either an error when trying to retreive the feed (in which case an error is logged in the admin panel error log), or by clicking on the green check mark on the list of feeds. The code for both of those is pretty solid. If the scheduled task happens to run at a time where the server or internet connection may be down, it would cause all feeds to get disabled because none of them could be connected to, but again, that would log an error in the error log.
I'm not able to reproduce it, and your the only one out of over 3K downloads to mention it. I don't think it's a bug in the mod.