diff --git a/linux-nvim/tests/integration_test.rs b/linux-nvim/tests/integration_test.rs
index 2619403..187dc7f 100644
--- a/linux-nvim/tests/integration_test.rs
+++ b/linux-nvim/tests/integration_test.rs
@@ -1,5 +1,6 @@
-use serde_json::Value;
+use serde_json::{json, Value};
 use std::io::{BufRead, BufReader, Read, Write};
+use std::process::{Command, Stdio};
 
 fn send_message(stdin: &mut std::process::ChildStdin, msg: Value) {
     let s = serde_json::to_string(&msg).unwrap();
diff --git a/server/src/handlers.rs b/server/src/handlers.rs
index 78d5aec..f188298 100644
--- a/server/src/handlers.rs
+++ b/server/src/handlers.rs
@@ -2690,4 +2690,334 @@ mod tests {
         let tasks = handler.state.tasks.read();
         assert_eq!(tasks[0].status, "in_progress");
     }
+
+    #[tokio::test]
+    async fn test_handle_pin_file() {
+        let handler = setup_test_handler("pin_file");
+        let req = json!({
+            "jsonrpc": "2.0",
+            "id": 100,
+            "method": "tools/call",
+            "params": {
+                "name": "pin_file",
+                "arguments": {
+                    "file_path": "/path/to/pinned.rs",
+                    "namespace": "global"
+                }
+            }
+        });
+        let _ = handler.handle_request(req).await.unwrap();
+        let pinned = handler.state.pinned_files.read();
+        assert!(pinned.iter().any(|p| p.file_path == "/path/to/pinned.rs"));
+    }
+
+    #[tokio::test]
+    async fn test_handle_unpin_file() {
+        let handler = setup_test_handler("unpin_file");
+        handler.state.pinned_files.modify(|files| {
+            files.push(crate::models::PinnedFile {
+                namespace: "global".to_string(),
+                file_path: "/path/to/unpin.rs".to_string(),
+                timestamp: 0,
+                git_branch: None,
+            });
+        });
+        let req = json!({
+            "jsonrpc": "2.0",
+            "id": 101,
+            "method": "tools/call",
+            "params": {
+                "name": "unpin_file",
+                "arguments": {
+                    "file_path": "/path/to/unpin.rs",
+                    "namespace": "global"
+                }
+            }
+        });
+        let _ = handler.handle_request(req).await.unwrap();
+        let pinned = handler.state.pinned_files.read();
+        assert!(!pinned.iter().any(|p| p.file_path == "/path/to/unpin.rs"));
+    }
+
+    #[tokio::test]
+    async fn test_handle_learn_preference() {
+        let handler = setup_test_handler("learn_preference");
+        let req = json!({
+            "jsonrpc": "2.0",
+            "id": 102,
+            "method": "tools/call",
+            "params": {
+                "name": "learn_preference",
+                "arguments": {
+                    "key": "formatting",
+                    "value": "use spaces"
+                }
+            }
+        });
+        let _ = handler.handle_request(req).await.unwrap();
+        let prefs = handler.state.prefs.read();
+        assert!(prefs.values().any(|p| p.key == "formatting" && p.value == "use spaces"));
+    }
+
+    #[tokio::test]
+    async fn test_handle_read_preferences() {
+        let handler = setup_test_handler("read_preferences");
+        handler.state.prefs.modify(|prefs| {
+            prefs.insert("theme".to_string(), crate::models::Preference {
+                key: "theme".to_string(),
+                value: "dark".to_string(),
+                updated_at: 0,
+            });
+        });
+        let req = json!({
+            "jsonrpc": "2.0",
+            "id": 103,
+            "method": "tools/call",
+            "params": {
+                "name": "read_preferences",
+                "arguments": {}
+            }
+        });
+        let response = handler.handle_request(req).await.unwrap();
+        let content = response["result"]["content"][0]["text"].as_str().unwrap();
+        assert!(content.contains("theme"));
+        assert!(content.contains("dark"));
+    }
+
+    #[tokio::test]
+    async fn test_handle_delete_task() {
+        let handler = setup_test_handler("delete_task");
+        handler.state.tasks.modify(|tasks| {
+            tasks.push(crate::models::Task {
+                id: "task-to-delete".to_string(),
+                title: "".to_string(),
+                status: "".to_string(),
+                description: "".to_string(),
+                created_at: 0,
+                updated_at: 0,
+                git_branch: None,
+                acceptance_criteria: vec![],
+                dependencies: vec![],
+                parent_id: None,
+            });
+        });
+        let req = json!({
+            "jsonrpc": "2.0",
+            "id": 104,
+            "method": "tools/call",
+            "params": {
+                "name": "delete_task",
+                "arguments": {
+                    "id": "task-to-delete"
+                }
+            }
+        });
+        let _ = handler.handle_request(req).await.unwrap();
+        let tasks = handler.state.tasks.read();
+        assert!(tasks.is_empty());
+    }
+
+    #[tokio::test]
+    async fn test_handle_add_milestone() {
+        let handler = setup_test_handler("add_milestone");
+        let req = json!({
+            "jsonrpc": "2.0",
+            "id": 105,
+            "method": "tools/call",
+            "params": {
+                "name": "add_milestone",
+                "arguments": {
+                    "title": "v1.0",
+                    "namespace": "global"
+                }
+            }
+        });
+        let _ = handler.handle_request(req).await.unwrap();
+        let milestones = handler.state.milestones.read();
+        assert_eq!(milestones.len(), 1);
+        assert_eq!(milestones[0].title, "v1.0");
+    }
+
+    #[tokio::test]
+    async fn test_handle_update_milestone() {
+        let handler = setup_test_handler("update_milestone");
+        handler.state.milestones.modify(|ms| {
+            ms.push(crate::models::Milestone {
+                id: "v1.0".to_string(),
+                title: "v1.0".to_string(),
+                status: "pending".to_string(),
+                namespace: "".to_string(),
+                target_date: None,
+            });
+        });
+        let req = json!({
+            "jsonrpc": "2.0",
+            "id": 106,
+            "method": "tools/call",
+            "params": {
+                "name": "update_milestone",
+                "arguments": {
+                    "id": "v1.0",
+                    "status": "completed"
+                }
+            }
+        });
+        let _ = handler.handle_request(req).await.unwrap();
+        let ms = handler.state.milestones.read();
+        assert_eq!(ms[0].status, "completed");
+    }
+
+    #[tokio::test]
+    async fn test_handle_list_milestones() {
+        let handler = setup_test_handler("list_milestones");
+        handler.state.milestones.modify(|ms| {
+            ms.push(crate::models::Milestone {
+                id: "v2.0".to_string(),
+                title: "v2.0".to_string(),
+                status: "pending".to_string(),
+                namespace: "".to_string(),
+                target_date: None,
+            });
+        });
+        let req = json!({
+            "jsonrpc": "2.0",
+            "id": 107,
+            "method": "tools/call",
+            "params": {
+                "name": "list_milestones",
+                "arguments": {}
+            }
+        });
+        let response = handler.handle_request(req).await.unwrap();
+        let content = response["result"]["content"][0]["text"].as_str().unwrap();
+        assert!(content.contains("v2.0"));
+    }
+
+    #[tokio::test]
+    async fn test_handle_add_pr_checklist_item() {
+        let handler = setup_test_handler("add_pr_checklist_item");
+        let req = json!({
+            "jsonrpc": "2.0",
+            "id": 108,
+            "method": "tools/call",
+            "params": {
+                "name": "add_pr_checklist_item",
+                "arguments": {
+                    "description": "Check tests",
+                    "namespace": "global"
+                }
+            }
+        });
+        let _ = handler.handle_request(req).await.unwrap();
+        let cl = handler.state.pr_checklists.read();
+        assert_eq!(cl.len(), 1);
+        assert_eq!(cl[0].description, "Check tests");
+    }
+
+    #[tokio::test]
+    async fn test_handle_clear_pr_checklist() {
+        let handler = setup_test_handler("clear_pr_checklist");
+        handler.state.pr_checklists.modify(|cl| {
+            cl.push(crate::models::PrChecklistItem {
+                namespace: "global".to_string(),
+                id: "item".to_string(),
+                description: "".to_string(),
+            });
+        });
+        let req = json!({
+            "jsonrpc": "2.0",
+            "id": 109,
+            "method": "tools/call",
+            "params": {
+                "name": "clear_pr_checklist",
+                "arguments": {
+                    "namespace": "global"
+                }
+            }
+        });
+        let _ = handler.handle_request(req).await.unwrap();
+        let cl = handler.state.pr_checklists.read();
+        assert!(cl.is_empty());
+    }
+
+    #[tokio::test]
+    async fn test_handle_clear_handoff_memos() {
+        let handler = setup_test_handler("clear_handoff_memos");
+        handler.state.handoff_memos.modify(|ms| {
+            ms.push(crate::models::HandoffMemo {
+                id: "memo".to_string(),
+                namespace: "".to_string(),
+                content: "".to_string(),
+                author: "".to_string(),
+                timestamp: 0,
+            });
+        });
+        let req = json!({
+            "jsonrpc": "2.0",
+            "id": 110,
+            "method": "tools/call",
+            "params": {
+                "name": "clear_handoff_memos",
+                "arguments": {
+                    "ids": ["memo"]
+                }
+            }
+        });
+        let _ = handler.handle_request(req).await.unwrap();
+        let ms = handler.state.handoff_memos.read();
+        assert!(ms.is_empty());
+    }
+
+    #[tokio::test]
+    async fn test_handle_clear_sticky_notes() {
+        let handler = setup_test_handler("clear_sticky_notes");
+        handler.state.sticky.modify(|ns| {
+            ns.push(crate::models::StickyNote {
+                content: "".to_string(),
+                timestamp: 0,
+            });
+        });
+        let req = json!({
+            "jsonrpc": "2.0",
+            "id": 111,
+            "method": "tools/call",
+            "params": {
+                "name": "clear_sticky_notes",
+                "arguments": {}
+            }
+        });
+        let _ = handler.handle_request(req).await.unwrap();
+        let ns = handler.state.sticky.read();
+        assert!(ns.is_empty());
+    }
+
+    #[tokio::test]
+    async fn test_handle_delete_sticky_note() {
+        let handler = setup_test_handler("delete_sticky_note");
+        handler.state.sticky.modify(|ns| {
+            ns.push(crate::models::StickyNote {
+                content: "note1".to_string(),
+                timestamp: 0,
+            });
+            ns.push(crate::models::StickyNote {
+                content: "note2".to_string(),
+                timestamp: 0,
+            });
+        });
+        let req = json!({
+            "jsonrpc": "2.0",
+            "id": 112,
+            "method": "tools/call",
+            "params": {
+                "name": "delete_sticky_note",
+                "arguments": {
+                    "index": 1
+                }
+            }
+        });
+        let _ = handler.handle_request(req).await.unwrap();
+        let ns = handler.state.sticky.read();
+        assert_eq!(ns.len(), 1);
+        assert_eq!(ns[0].content, "note2");
+    }
 }
diff --git a/server/src/store.rs b/server/src/store.rs
index a44ff3b..7ac0cb1 100644
--- a/server/src/store.rs
+++ b/server/src/store.rs
@@ -45,6 +45,14 @@ impl<T: DeserializeOwned + Default + Serialize + Clone + Send + 'static> Store<T
         lock.clone()
     }
 
+    pub fn inspect<F, R>(&self, f: F) -> R
+    where
+        F: FnOnce(&T) -> R,
+    {
+        let lock = self.cache.read().unwrap();
+        f(&lock)
+    }
+
     pub fn modify<F: FnOnce(&mut T)>(&self, f: F) {
         let mut lock = self.cache.write().unwrap();
         f(&mut lock);