diff --git a/graphify/detect.py b/graphify/detect.py
index 95a26013..23e9198b 100644
--- a/graphify/detect.py
+++ b/graphify/detect.py
@@ -808,6 +808,7 @@ _SKIP_DIRS = {
     ".next", ".nuxt", ".turbo", ".angular",
     ".idea", ".cache", ".parcel-cache", ".svelte-kit", ".terraform", ".serverless",
     ".graphify",  # graphify's own extraction cache — never index self-generated data
+    ".obsidian", ".smart-env",  # Obsidian vault metadata and plugin caches (#2493)
     ".worktrees",  # git worktree convention (#947) — sibling checkouts, always redundant
 }
 
diff --git a/tests/test_detect.py b/tests/test_detect.py
index 576837a2..2c6cc177 100644
--- a/tests/test_detect.py
+++ b/tests/test_detect.py
@@ -76,6 +76,25 @@ def test_detect_skips_noise_dot_dirs():
                 assert noise not in f
 
 
+def test_detect_skips_obsidian_vault_metadata_dirs(tmp_path):
+    """Obsidian metadata and plugin caches are not part of the source corpus (#2493)."""
+    for directory in (".obsidian", ".smart-env"):
+        metadata_dir = tmp_path / directory
+        metadata_dir.mkdir()
+        (metadata_dir / "state.json").write_text("{}")
+    trash_dir = tmp_path / ".trash"
+    trash_dir.mkdir()
+    (trash_dir / "state.json").write_text("{}")
+    (tmp_path / "project.json").write_text("{}")
+
+    result = detect(tmp_path)
+
+    assert result["files"]["code"] == [
+        str(trash_dir / "state.json"),
+        str(tmp_path / "project.json"),
+    ]
+
+
 def test_classify_md_paper_by_signals(tmp_path):
     """A .md file with enough paper signals should classify as PAPER."""
     paper = tmp_path / "paper.md"