One concern I have is that right now each session gets fresh "eyes" on the problem. Right now I find I get a lot of mileage out of a combination of long-running sessions and fresh ones. I worry with a single generated concept graph that gets only incremental refreshes will become stale slowly, and in subtle ways that are hard to detect. That could lead to semantic drift in the graph from reality, and every new session will take the drifted form as gospel. Have you run any long tests (weeks or longer) on this to make sure that this doesn't happen? My understanding is SWE Bench is only a point-in-time evaluation.
Also the graph is stored in the repo, right? How mergeable is it? I know I wouldn't want to do conflict resolution on that myself, and even Opus struggles to keep all the references correct (especially when comments are involved) when there's an B->C, A->B symbol rename.