I use the latest universal version of OmniFocus 2, both on my iPad Mini 2 and iPhone 5C.
I remember seeing summary dots for flagged items before, as described in https://support.omnigroup.com/documentation/en/omnifocus-2-for-iphone-user-manual/print
But now somehow I only see summary dots for my due items, in both project and context view. In other words, these are not coloured dots for flagged items.