diff --git a/.DS_Store b/.DS_Store
index d66d8d339..606a28c2c 100644
Binary files a/.DS_Store and b/.DS_Store differ
diff --git a/apps/cli/biome.json b/apps/cli/biome.json
index 0fae93d4d..d0e15f5d1 100644
--- a/apps/cli/biome.json
+++ b/apps/cli/biome.json
@@ -3,5 +3,12 @@
   "extends": ["../../biome2.json"],
   "files": {
     "includes": ["src/**/*", "scripts/**/*"]
+  },
+  "linter": {
+    "rules": {
+      "suspicious": {
+        "noConsole": "off"
+      }
+    }
   }
 }
diff --git a/apps/cli/src/commands/deploy/schemas.ts b/apps/cli/src/commands/deploy/schemas.ts
index 5f629f697..fa2349831 100644
--- a/apps/cli/src/commands/deploy/schemas.ts
+++ b/apps/cli/src/commands/deploy/schemas.ts
@@ -35,7 +35,6 @@ import { z } from 'zod';
 
 // Get DocDeployResultSchema from deploy namespace
 const DocDeployResultSchema = deploy.DocDeployResultSchema;
-type DocDeployResult = deploy.DocDeployResult;
 
 // Re-export all the shared schemas from server-shared
 export {
diff --git a/apps/cli/src/commands/main/main.test.tsx b/apps/cli/src/commands/main/main.test.tsx
index 520c900f8..c5c266b0f 100644
--- a/apps/cli/src/commands/main/main.test.tsx
+++ b/apps/cli/src/commands/main/main.test.tsx
@@ -8,7 +8,7 @@ vi.mock('bun', () => ({
       public pattern: string,
       public options: any
     ) {}
-    async *scan() {
+    async scan() {
       // Return empty for tests
       return [];
     }
diff --git a/apps/cli/src/commands/main/main.tsx b/apps/cli/src/commands/main/main.tsx
index bbe4a6915..bdb9dd7a9 100644
--- a/apps/cli/src/commands/main/main.tsx
+++ b/apps/cli/src/commands/main/main.tsx
@@ -28,7 +28,7 @@ type AppMode = 'Planning' | 'Auto-accept' | 'None';
 export function Main() {
   const { exit } = useApp();
   const [input, setInput] = useState('');
-  const [history, setHistory] = useState<ChatHistoryEntry[]>([]);
+  const [_history, setHistory] = useState<ChatHistoryEntry[]>([]);
   const [messages, setMessages] = useState<CliAgentMessage[]>([]);
   const historyCounter = useRef(0);
   const messageCounter = useRef(0);
@@ -45,6 +45,7 @@ export function Main() {
   const abortControllerRef = useRef<AbortController | null>(null);
 
   // Callback to update messages from agent stream
+  // biome-ignore lint/suspicious/noExplicitAny: We need to fix this to actually make it typesafe
   const handleMessageUpdate = useCallback((modelMessages: any[]) => {
     const transformedMessages = transformModelMessagesToUI(modelMessages);
 
@@ -125,6 +126,7 @@ export function Main() {
         role: 'user',
         content: trimmed,
       };
+      // biome-ignore lint/suspicious/noExplicitAny: We need to fix this to actually make it typesafe
       const updatedModelMessages = [...existingModelMessages, userMessage] as any;
 
       // Update UI state immediately
diff --git a/apps/cli/src/components/chat-layout.tsx b/apps/cli/src/components/chat-layout.tsx
index 386c96fea..764850d07 100644
--- a/apps/cli/src/components/chat-layout.tsx
+++ b/apps/cli/src/components/chat-layout.tsx
@@ -127,7 +127,7 @@ export function ChatInput({
 
   // Slash command state
   const [slashQuery, setSlashQuery] = useState<string | null>(null);
-  const [slashStart, setSlashStart] = useState<number>(-1);
+  const [_slashStart, setSlashStart] = useState<number>(-1);
   const [commandResults, setCommandResults] = useState<SlashCommand[]>([]);
   const [showCommandAutocomplete, setShowCommandAutocomplete] = useState(false);
   const [selectedCommandIndex, setSelectedCommandIndex] = useState(0);
diff --git a/apps/cli/src/components/edit-message.tsx b/apps/cli/src/components/edit-message.tsx
index 7d5143345..029541184 100644
--- a/apps/cli/src/components/edit-message.tsx
+++ b/apps/cli/src/components/edit-message.tsx
@@ -65,7 +65,7 @@ function parseDiff(diff: string): { lines: ParsedDiffLine[]; additions: number;
  */
 export function EditMessage({ message }: EditMessageProps) {
   const isExpanded = useExpansion();
-  const { args, result } = message;
+  const { result } = message;
 
   if (!result) {
     return null;
@@ -128,6 +128,7 @@ export function EditMessage({ message }: EditMessageProps) {
 
             return (
               <Text
+                // biome-ignore lint/suspicious/noArrayIndexKey: Messages are stable and won't be reordered? Dallin can confirm?
                 key={idx}
                 color={UI_CONSTANTS.COLORS.TEXT_PRIMARY}
                 {...(backgroundColor && { backgroundColor })}
diff --git a/apps/cli/src/components/execute-message.tsx b/apps/cli/src/components/execute-message.tsx
index 53d562d25..997a8ec06 100644
--- a/apps/cli/src/components/execute-message.tsx
+++ b/apps/cli/src/components/execute-message.tsx
@@ -21,6 +21,7 @@ export function ExecuteMessage({ message }: ExecuteMessageProps) {
   const { args, result } = message;
 
   // Get command description and output based on tool type
+  // biome-ignore lint/correctness/noUnusedVariables: false positive
   let description = '';
   let output = '';
   let exitCode: number | undefined;
@@ -38,7 +39,7 @@ export function ExecuteMessage({ message }: ExecuteMessageProps) {
       description = `Search for "${args.pattern}"${args.glob ? ` in ${args.glob}` : ''}`;
     }
     if (result && 'matches' in result) {
-      output = result.matches.map((m: any) => `${m.path}:${m.lineNum}: ${m.lineText}`).join('\n');
+      output = result.matches.map((m) => `${m.path}:${m.lineNum}: ${m.lineText}`).join('\n');
       success = result.totalMatches > 0;
     }
   } else if (message.kind === 'ls') {
diff --git a/apps/cli/src/components/history-browser.tsx b/apps/cli/src/components/history-browser.tsx
index b4cf9035f..3eb6fc210 100644
--- a/apps/cli/src/components/history-browser.tsx
+++ b/apps/cli/src/components/history-browser.tsx
@@ -40,7 +40,6 @@ function getRelativeTime(dateString: string): string {
 }
 
 export function HistoryBrowser({ workingDirectory, onSelect, onCancel }: HistoryBrowserProps) {
-  const { exit } = useApp();
   const [conversations, setConversations] = useState<ConversationListItem[]>([]);
   const [selectedIndex, setSelectedIndex] = useState(0);
   const [loading, setLoading] = useState(true);
@@ -59,7 +58,7 @@ export function HistoryBrowser({ workingDirectory, onSelect, onCancel }: History
             let title = 'Untitled conversation';
             if (fullConvo?.modelMessages) {
               const firstUserMsg = fullConvo.modelMessages.find(
-                (msg: any) => msg.message.kind === 'user'
+                (msg) => msg.message.kind === 'user'
               );
               if (firstUserMsg && firstUserMsg.message.kind === 'user') {
                 // Truncate to first line and max 60 chars
diff --git a/apps/cli/src/components/multi-line-text-input.tsx b/apps/cli/src/components/multi-line-text-input.tsx
index 47f4e79a9..312c8754c 100644
--- a/apps/cli/src/components/multi-line-text-input.tsx
+++ b/apps/cli/src/components/multi-line-text-input.tsx
@@ -168,6 +168,7 @@ export function MultiLineTextInput({
         if (action.preventDefault) {
           // Apply the action
           if (action.type === 'mode-change' && action.mode) {
+            // biome-ignore lint/style/noNonNullAssertion: Dallin can confirm if this is safe
             setVimState((prev) => ({ ...prev, mode: action.mode! }));
             if (action.mode === 'visual') {
               setVimState((prev) => ({ ...prev, visualStart: cursorPosition }));
@@ -180,9 +181,11 @@ export function MultiLineTextInput({
             onChange(action.text);
           }
           if (action.yankedText !== undefined) {
+            // biome-ignore lint/style/noNonNullAssertion: Dallin can confirm if this is safe
             setVimState((prev) => ({ ...prev, yankedText: action.yankedText! }));
           }
           if (action.mode !== undefined) {
+            // biome-ignore lint/style/noNonNullAssertion: Dallin can confirm if this is safe
             setVimState((prev) => ({ ...prev, mode: action.mode! }));
           }
           return;
@@ -324,7 +327,9 @@ export function MultiLineTextInput({
         let positionInLine = cursorPosition;
 
         for (let i = 0; i < lines.length; i++) {
+          // biome-ignore lint/style/noNonNullAssertion: Dallin can confirm if this is safe
           const lineLength = lines[i]!.length + (i < lines.length - 1 ? 1 : 0); // +1 for newline except last line
+          // biome-ignore lint/style/noNonNullAssertion: Dallin can confirm if this is safe
           if (cursorPosition <= currentLineStart + lines[i]!.length) {
             currentLineIndex = i;
             positionInLine = cursorPosition - currentLineStart;
@@ -337,6 +342,7 @@ export function MultiLineTextInput({
           const previousLineStart = lines
             .slice(0, currentLineIndex - 1)
             .reduce((acc, line) => acc + line.length + 1, 0);
+          // biome-ignore lint/style/noNonNullAssertion: Dallin can confirm if this is safe
           const previousLineLength = lines[currentLineIndex - 1]!.length;
           const newPosition = previousLineStart + Math.min(positionInLine, previousLineLength);
           setCursorPosition(newPosition);
@@ -352,7 +358,9 @@ export function MultiLineTextInput({
         let positionInLine = cursorPosition;
 
         for (let i = 0; i < lines.length; i++) {
+          // biome-ignore lint/style/noNonNullAssertion: Dallin can confirm if this is safe
           const lineLength = lines[i]!.length + (i < lines.length - 1 ? 1 : 0); // +1 for newline except last line
+          // biome-ignore lint/style/noNonNullAssertion: Dallin can confirm if this is safe
           if (cursorPosition <= currentLineStart + lines[i]!.length) {
             currentLineIndex = i;
             positionInLine = cursorPosition - currentLineStart;
@@ -365,7 +373,7 @@ export function MultiLineTextInput({
           const nextLineStart = lines
             .slice(0, currentLineIndex + 1)
             .reduce((acc, line) => acc + line.length + 1, 0);
-          const nextLineLength = lines[currentLineIndex + 1]!.length;
+          const nextLineLength = lines[currentLineIndex + 1]?.length ?? 0;
           const newPosition = nextLineStart + Math.min(positionInLine, nextLineLength);
           setCursorPosition(newPosition);
         }
diff --git a/apps/cli/src/components/read-message.tsx b/apps/cli/src/components/read-message.tsx
index 867bcbcf3..09c3e99c9 100644
--- a/apps/cli/src/components/read-message.tsx
+++ b/apps/cli/src/components/read-message.tsx
@@ -20,7 +20,7 @@ interface ReadMessageProps {
  */
 export function ReadMessage({ message }: ReadMessageProps) {
   const isExpanded = useExpansion();
-  const { args, result } = message;
+  const { result } = message;
 
   if (!result) {
     return null;
diff --git a/apps/cli/src/components/shared/content-lines.tsx b/apps/cli/src/components/shared/content-lines.tsx
index d2893d958..79abaf871 100644
--- a/apps/cli/src/components/shared/content-lines.tsx
+++ b/apps/cli/src/components/shared/content-lines.tsx
@@ -17,6 +17,7 @@ export function ContentLines({
   return (
     <>
       {lines.map((line, idx) => (
+        // biome-ignore lint/suspicious/noArrayIndexKey: Lines position stable during rendering? Dallin can confirm?
         <Text key={idx} color={color}>
           {line}
         </Text>
diff --git a/apps/cli/src/components/write-message.tsx b/apps/cli/src/components/write-message.tsx
index 4ecdd3b5d..5ab156ec6 100644
--- a/apps/cli/src/components/write-message.tsx
+++ b/apps/cli/src/components/write-message.tsx
@@ -42,6 +42,7 @@ export function WriteMessage({ message }: WriteMessageProps) {
 
         return (
           <Box
+            // biome-ignore lint/suspicious/noArrayIndexKey: Messages are stable and won't be reordered? Dallin can confirm?
             key={fileIdx}
             flexDirection="column"
             marginBottom={fileIdx < args.files.length - 1 ? 1 : 0}
diff --git a/apps/cli/src/services/analytics-engineer-handler.ts b/apps/cli/src/services/analytics-engineer-handler.ts
index 87312239a..6c04450fa 100644
--- a/apps/cli/src/services/analytics-engineer-handler.ts
+++ b/apps/cli/src/services/analytics-engineer-handler.ts
@@ -155,7 +155,7 @@ export async function runAnalyticsEngineerAgent(params: RunAnalyticsEngineerAgen
         accumulatorState,
         part.toolCallId,
         part.toolName,
-        part.output
+        part.output as string | Record<string, unknown>
       );
       onMessageUpdate?.(accumulatorState.messages);
     }
diff --git a/apps/cli/src/services/message-accumulator.ts b/apps/cli/src/services/message-accumulator.ts
index e162f2aa3..14acfdaf6 100644
--- a/apps/cli/src/services/message-accumulator.ts
+++ b/apps/cli/src/services/message-accumulator.ts
@@ -68,7 +68,7 @@ export function addReasoningContent(
     state.currentStepAssistantMessage &&
     Array.isArray(state.currentStepAssistantMessage.content)
   ) {
-    (state.currentStepAssistantMessage.content as Array<typeof reasoningContent>).push(
+    (state.currentStepAssistantMessage.content as (typeof reasoningContent)[]).push(
       reasoningContent
     );
   }
@@ -108,7 +108,7 @@ export function addTextContent(
     state.currentStepAssistantMessage &&
     Array.isArray(state.currentStepAssistantMessage.content)
   ) {
-    (state.currentStepAssistantMessage.content as Array<typeof textContent>).push(textContent);
+    (state.currentStepAssistantMessage.content as (typeof textContent)[]).push(textContent);
   }
 
   return state;
@@ -121,7 +121,7 @@ export function addToolCall(
   state: MessageAccumulatorState,
   toolCallId: string,
   toolName: string,
-  input: any
+  input: unknown
 ): MessageAccumulatorState {
   const toolCallContent = {
     type: 'tool-call' as const,
@@ -150,9 +150,7 @@ export function addToolCall(
     state.currentStepAssistantMessage &&
     Array.isArray(state.currentStepAssistantMessage.content)
   ) {
-    (state.currentStepAssistantMessage.content as Array<typeof toolCallContent>).push(
-      toolCallContent
-    );
+    (state.currentStepAssistantMessage.content as (typeof toolCallContent)[]).push(toolCallContent);
   }
 
   return state;
@@ -166,7 +164,7 @@ export function addToolResult(
   state: MessageAccumulatorState,
   toolCallId: string,
   toolName: string,
-  output: any
+  output: string | Record<string, unknown>
 ): MessageAccumulatorState {
   const toolResultContent = {
     type: 'tool-result' as const,
@@ -194,7 +192,7 @@ export function addToolResult(
 
   // Append to existing tool message
   if (Array.isArray(state.currentToolMessage.content)) {
-    (state.currentToolMessage.content as Array<typeof toolResultContent>).push(toolResultContent);
+    (state.currentToolMessage.content as (typeof toolResultContent)[]).push(toolResultContent);
   }
 
   return state;
diff --git a/apps/cli/src/utils/conversation-history.ts b/apps/cli/src/utils/conversation-history.ts
index b5ced7bb5..ac8b35300 100644
--- a/apps/cli/src/utils/conversation-history.ts
+++ b/apps/cli/src/utils/conversation-history.ts
@@ -46,13 +46,6 @@ function encodePathForDirectory(path: string): string {
   return Buffer.from(path).toString('base64url');
 }
 
-/**
- * Decodes a directory name back to the original path
- */
-function decodePathFromDirectory(encoded: string): string {
-  return Buffer.from(encoded, 'base64url').toString('utf-8');
-}
-
 /**
  * Gets the history directory for a specific working directory
  */
@@ -112,7 +105,7 @@ export async function loadConversation(
     const data = await readFile(filePath, 'utf-8');
     const parsed = JSON.parse(data);
     return ConversationSchema.parse(parsed);
-  } catch (error) {
+  } catch (_error) {
     // File doesn't exist or is invalid
     return null;
   }
@@ -124,6 +117,7 @@ export async function loadConversation(
 export async function saveModelMessages(
   chatId: string,
   workingDirectory: string,
+  // biome-ignore lint/suspicious/noExplicitAny: We need to fix this to actually make it typesafe
   modelMessages: any[]
 ): Promise<void> {
   let conversation = await loadConversation(chatId, workingDirectory);
@@ -134,6 +128,7 @@ export async function saveModelMessages(
   }
 
   // Replace the model messages with the new array
+  // biome-ignore lint/suspicious/noExplicitAny: We need to fix this to actually make it typesafe
   conversation.modelMessages = modelMessages as any[];
   conversation.updatedAt = new Date().toISOString();
 
@@ -174,7 +169,7 @@ export async function listConversations(
     return conversations
       .filter((c): c is NonNullable<typeof c> => c !== null)
       .sort((a, b) => new Date(b.updatedAt).getTime() - new Date(a.updatedAt).getTime());
-  } catch (error) {
+  } catch (_error) {
     // Directory doesn't exist or can't be read
     return [];
   }
@@ -228,7 +223,7 @@ export async function loadTodos(
     const data = await readFile(filePath, 'utf-8');
     const parsed = JSON.parse(data);
     return TodoListSchema.parse(parsed);
-  } catch (error) {
+  } catch (_error) {
     // File doesn't exist or is invalid
     return null;
   }
diff --git a/apps/cli/src/utils/file-search.ts b/apps/cli/src/utils/file-search.ts
index 095dcd563..eaddf2167 100644
--- a/apps/cli/src/utils/file-search.ts
+++ b/apps/cli/src/utils/file-search.ts
@@ -93,7 +93,7 @@ class FileSearcher {
             return `**/${pattern}`;
           });
           patterns.push(...adjustedPatterns);
-        } catch (error) {
+        } catch (_error) {
           // Silently ignore
         }
       }
diff --git a/apps/cli/src/utils/transform-messages.ts b/apps/cli/src/utils/transform-messages.ts
index 0583a571a..3909b0677 100644
--- a/apps/cli/src/utils/transform-messages.ts
+++ b/apps/cli/src/utils/transform-messages.ts
@@ -17,8 +17,6 @@ const TOOL_NAMES = {
   IDLE: 'idleTool',
 } as const;
 
-type ToolName = (typeof TOOL_NAMES)[keyof typeof TOOL_NAMES];
-
 /**
  * Type guards for tool arguments and results
  */