diff --git a/run.json b/run.json
index cb2f2618b..5206ca285 100644
--- a/run.json
+++ b/run.json
@@ -235,18 +235,20 @@
     "kind": "running"
   },
   "status_updated_at": "2026-05-09T17:42:23.254505Z",
-  "last_event_at": "2026-05-09T17:42:28.011863Z",
+  "last_event_at": "2026-05-09T17:47:34.563086Z",
   "pending_control": null,
   "checkpoint": {
-    "timestamp": "2026-05-09T17:42:28.064371Z",
-    "current_node": "committed",
+    "timestamp": "2026-05-09T17:47:34.622110Z",
+    "current_node": "uncommitted",
     "completed_nodes": [
       "start",
-      "committed"
+      "committed",
+      "uncommitted"
     ],
     "node_retries": {},
     "context_values": {
       "internal.retry_count.committed": 0,
+      "thread.committed.current_node": "uncommitted",
       "internal.run_id": "01KR6XA5QV0EREBTSCY9JV6RVE",
       "response.committed": "done",
       "thread.start.current_node": "committed",
@@ -257,11 +259,13 @@
       "failure_signature": "",
       "graph.goal": "Exercise run file scopes with committed and uncommitted sandbox changes",
       "graph.rankdir": "LR",
-      "current_node": "committed",
+      "current_node": "uncommitted",
       "internal.retry_count.start": 0,
-      "last_stage": "committed",
-      "internal.thread_id": "start",
+      "response.uncommitted": "done",
+      "last_stage": "uncommitted",
+      "internal.thread_id": "committed",
       "internal.fidelity": "compact",
+      "internal.retry_count.uncommitted": 0,
       "outcome": "succeeded"
     },
     "node_outcomes": {
@@ -297,14 +301,47 @@
           "total_usd_micros": 37585
         }
       },
+      "uncommitted": {
+        "status": "succeeded",
+        "context_updates": {
+          "last_response": "done",
+          "response.uncommitted": "done",
+          "last_stage": "uncommitted"
+        },
+        "notes": "Stage completed: uncommitted",
+        "usage": {
+          "input": {
+            "usage": {
+              "model": {
+                "provider": "anthropic",
+                "model_id": "claude-sonnet-4-6"
+              },
+              "tokens": {
+                "input_tokens": 633,
+                "output_tokens": 130,
+                "reasoning_tokens": 0,
+                "cache_read_tokens": 8022,
+                "cache_write_tokens": 8502
+              }
+            },
+            "facts": {
+              "provider": "anthropic",
+              "cache_write_5m_tokens": 8502,
+              "cache_write_1h_tokens": 0
+            }
+          },
+          "total_usd_micros": 38137
+        }
+      },
       "start": {
         "status": "succeeded",
         "usage": null
       }
     },
-    "next_node_id": "uncommitted",
+    "next_node_id": "exit",
     "node_visits": {
       "committed": 1,
+      "uncommitted": 1,
       "start": 1
     }
   },
@@ -343,6 +380,81 @@
           "start": 1
         }
       }
+    ],
+    [
+      36,
+      {
+        "timestamp": "2026-05-09T17:42:31.439199Z",
+        "current_node": "committed",
+        "completed_nodes": [
+          "start",
+          "committed"
+        ],
+        "node_retries": {},
+        "context_values": {
+          "graph.goal": "Exercise run file scopes with committed and uncommitted sandbox changes",
+          "failure_class": "",
+          "internal.fidelity": "compact",
+          "internal.thread_id": "start",
+          "outcome": "succeeded",
+          "internal.retry_count.committed": 0,
+          "failure_signature": "",
+          "internal.node_visit_count": 1,
+          "last_response": "done",
+          "internal.work_dir": "/home/daytona/workspace",
+          "graph.rankdir": "LR",
+          "last_stage": "committed",
+          "current_node": "committed",
+          "thread.start.current_node": "committed",
+          "internal.run_id": "01KR6XA5QV0EREBTSCY9JV6RVE",
+          "internal.retry_count.start": 0,
+          "response.committed": "done"
+        },
+        "node_outcomes": {
+          "start": {
+            "status": "succeeded",
+            "usage": null
+          },
+          "committed": {
+            "status": "succeeded",
+            "context_updates": {
+              "last_stage": "committed",
+              "last_response": "done",
+              "response.committed": "done"
+            },
+            "notes": "Stage completed: committed",
+            "usage": {
+              "input": {
+                "usage": {
+                  "model": {
+                    "provider": "anthropic",
+                    "model_id": "claude-sonnet-4-6"
+                  },
+                  "tokens": {
+                    "input_tokens": 582,
+                    "output_tokens": 118,
+                    "reasoning_tokens": 0,
+                    "cache_read_tokens": 8004,
+                    "cache_write_tokens": 8445
+                  }
+                },
+                "facts": {
+                  "provider": "anthropic",
+                  "cache_write_5m_tokens": 8445,
+                  "cache_write_1h_tokens": 0
+                }
+              },
+              "total_usd_micros": 37585
+            }
+          }
+        },
+        "next_node_id": "uncommitted",
+        "git_commit_sha": "a2c3fd39bf17f0a89ef439004674976aec070730",
+        "node_visits": {
+          "committed": 1,
+          "start": 1
+        }
+      }
     ]
   ],
   "conclusion": null,
@@ -355,12 +467,17 @@
     "clone_branch": "main"
   },
   "final_patch": null,
+  "diff_summary": {
+    "files_changed": 1,
+    "additions": 3,
+    "deletions": 0
+  },
   "pull_request": null,
   "superseded_by": null,
   "pending_interviews": {},
   "stages": {
-    "committed@1": {
-      "first_event_seq": 20,
+    "uncommitted@1": {
+      "first_event_seq": 39,
       "prompt": null,
       "response": null,
       "completion": null,
@@ -374,10 +491,35 @@
       "script_timing": null,
       "parallel_results": null,
       "output": null,
-      "started_at": "2026-05-09T17:42:25.043372Z",
+      "started_at": "2026-05-09T17:42:31.439341Z",
       "handler": "agent",
       "state": "running"
     },
+    "committed@1": {
+      "first_event_seq": 20,
+      "prompt": null,
+      "response": null,
+      "completion": {
+        "outcome": "succeeded",
+        "notes": "Stage completed: committed",
+        "failure_reason": null,
+        "timestamp": "2026-05-09T17:42:28.064179Z"
+      },
+      "provider_used": {
+        "mode": "agent",
+        "provider": "anthropic",
+        "model": "claude-sonnet-4-6"
+      },
+      "diff": null,
+      "script_invocation": null,
+      "script_timing": null,
+      "parallel_results": null,
+      "output": null,
+      "started_at": "2026-05-09T17:42:25.043372Z",
+      "handler": "agent",
+      "duration_ms": 3020,
+      "state": "succeeded"
+    },
     "start@1": {
       "first_event_seq": 16,
       "prompt": null,
diff --git a/stages/002-committed@1/diff.patch b/stages/002-committed@1/diff.patch
new file mode 100644
index 000000000..914b537dd
--- /dev/null
+++ b/stages/002-committed@1/diff.patch
@@ -0,0 +1,9 @@
+diff --git a/docs/internal/live-run-files-scope-tracked.md b/docs/internal/live-run-files-scope-tracked.md
+new file mode 100644
+index 00000000..11669332
+--- /dev/null
++++ b/docs/internal/live-run-files-scope-tracked.md
+@@ -0,0 +1,3 @@
++Live run files scope test
++
++Initial content from first node at 2026-05-09T17:42:27Z
diff --git a/stages/002-committed@1/status.json b/stages/002-committed@1/status.json
new file mode 100644
index 000000000..4a891cc2a
--- /dev/null
+++ b/stages/002-committed@1/status.json
@@ -0,0 +1,6 @@
+{
+  "outcome": "succeeded",
+  "notes": "Stage completed: committed",
+  "failure_reason": null,
+  "timestamp": "2026-05-09T17:42:28.064179Z"
+}
\ No newline at end of file
diff --git a/stages/003-uncommitted@1/prompt.md b/stages/003-uncommitted@1/prompt.md
new file mode 100644
index 000000000..90e5aadee
--- /dev/null
+++ b/stages/003-uncommitted@1/prompt.md
@@ -0,0 +1,10 @@
+Goal: Exercise run file scopes with committed and uncommitted sandbox changes
+
+## Completed stages
+- **committed**: succeeded
+  - Model: claude-sonnet-4-6, 582 tokens in / 118 out
+
+
+Run exactly one Bash tool command with timeout_ms set to 310000 or higher: printf '
+Modified by second node before sleeping at %s
+' "$(date -u +%Y-%m-%dT%H:%M:%SZ)" >> docs/internal/live-run-files-scope-tracked.md && sleep 300. Wait for it to return. Do not run any other commands, do not read files, and do not edit anything else. Then reply with the single word done and stop.
\ No newline at end of file
diff --git a/stages/003-uncommitted@1/provider_used.json b/stages/003-uncommitted@1/provider_used.json
new file mode 100644
index 000000000..d0418b4c6
--- /dev/null
+++ b/stages/003-uncommitted@1/provider_used.json
@@ -0,0 +1,5 @@
+{
+  "mode": "agent",
+  "provider": "anthropic",
+  "model": "claude-sonnet-4-6"
+}
\ No newline at end of file
diff --git a/stages/003-uncommitted@1/response.md b/stages/003-uncommitted@1/response.md
new file mode 100644
index 000000000..348ebd949
--- /dev/null
+++ b/stages/003-uncommitted@1/response.md
@@ -0,0 +1 @@
+done
\ No newline at end of file