I have a few recurring items that are meant to happen every pay check (bi-weekly cadence). I forgot to do them for almost the full two weeks. The day before the next recurrence was suppose to happen, I finally remembered to do the transfers. The next day was the next recurrence, so I did it again for that day. I linked the transactions from both days to the recurring item, but the 'warning' status is still applied to the instances of the recurring item from the prior pay period.
I think what's happening is that the transactions were so late that the logic isn't figuring out that they've been done; in this case, though, it's mostly fine that I did them late. I'd like the late transactions to be linkable to the instances of the recurring item that they should have been attached to, since the summarizations of "remaining recurring" values are treating them as not contributing to the total.