I doubt there’s any fix for this but I thought I’d check.
I spent a couple hours yesterday doing final clean up on a matte, getting rid of a few spots, etc. I had two brushes set, a white one and a black one. I re-opened the batch this morning and discovered for a bunch of frames it had combined all the strokes on the frame into one selectable stroke in edit and made all the strokes on that frame either white or black with predictably not useful results. Either a bunch of white spots outside the matte or a bunch of black spots in the matte. I fixed a couple of frames, it wasn’t all of them, and it promptly did it again. This is flame 2024.2.1 on linux.
That sounds like consolidate gone wrong - not realizing that you have different brushes. Likely a bug. But unless it’s a million strokes, maybe turn off consolidate for now?
The part of consolidate that actually used to work seems to no longer work that well. I can’t put my finger on it, but I’ve found it’s best to keep it off.