Where is the overlay? Is it before the Source Record filter in that scene? Or is it downstream somewhere?
Things happen in order, which is why you can control the order. If something happens after the Source Record filter, then it won't be recorded. (at least not by that instance of it)
Note: this assumes that the webm overlay is another filter, or something that happens outside of the scene entirely, kinda like the Downstream Keyer plugin does. If it's something in the scene's list of sources, all of that happens before any filters on that scene, so it has to be something else.
Source 1 -> [source filters] -> |
Source 2 -> [source filters] -> | -> Scene -> [scene filters] -> everything else
Source 3 -> [source filters] -> |