diff --git a/mcp/.serena/project.yml b/mcp/.serena/project.yml
index a0a980e806..abb5cab52e 100644
--- a/mcp/.serena/project.yml
+++ b/mcp/.serena/project.yml
@@ -141,3 +141,12 @@ symbol_info_budget:
 # Note: the backend is fixed at startup. If a project with a different backend
 # is activated post-init, an error will be returned.
 language_backend:
+
+# line ending convention to use when writing source files.
+# Possible values: unset (use global setting), "lf", "crlf", or "native" (platform default)
+# This does not affect Serena's own files (e.g. memories and configuration files), which always use native line endings.
+line_ending:
+
+# list of regex patterns which, when matched, mark a memory entry as read‑only.
+# Extends the list from the global configuration, merging the two lists.
+read_only_memory_patterns: []
diff --git a/mcp/packages/server/data/base_instructions.md b/mcp/packages/server/data/base_instructions.md
new file mode 100644
index 0000000000..10245a2b45
--- /dev/null
+++ b/mcp/packages/server/data/base_instructions.md
@@ -0,0 +1,2 @@
+You have access to Penpot tools in order to interact with Penpot designs.
+Before working with these tools, be sure to read the 'Penpot High-Level Overview' via the `high_level_overview` tool.
diff --git a/mcp/packages/server/src/ConfigurationLoader.ts b/mcp/packages/server/src/ConfigurationLoader.ts
index 390522ff24..2b4b11288e 100644
--- a/mcp/packages/server/src/ConfigurationLoader.ts
+++ b/mcp/packages/server/src/ConfigurationLoader.ts
@@ -4,15 +4,12 @@ import { createLogger } from "./logger.js";
 
 /**
  * Configuration loader for prompts and server settings.
- *
- * Handles loading and parsing of YAML configuration files,
- * providing type-safe access to configuration values with
- * appropriate fallbacks for missing files or values.
  */
 export class ConfigurationLoader {
     private readonly logger = createLogger("ConfigurationLoader");
     private readonly baseDir: string;
-    private initialInstructions: string;
+    private readonly initialInstructions: string;
+    private readonly baseInstructions: string;
 
     /**
      * Creates a new configuration loader instance.
@@ -22,6 +19,7 @@ export class ConfigurationLoader {
     constructor(baseDir: string) {
         this.baseDir = baseDir;
         this.initialInstructions = this.loadFileContent(join(this.baseDir, "data", "initial_instructions.md"));
+        this.baseInstructions = this.loadFileContent(join(this.baseDir, "data", "base_instructions.md"));
     }
 
     private loadFileContent(filePath: string): string {
@@ -32,11 +30,22 @@ export class ConfigurationLoader {
     }
 
     /**
-     * Gets the initial instructions for the MCP server.
+     * Gets the initial instructions for the MCP server corresponding to the
+     * 'Penpot High-Level Overview'
      *
-     * @returns The initial instructions string, or undefined if not configured
+     * @returns The initial instructions string
      */
     public getInitialInstructions(): string {
         return this.initialInstructions;
     }
+
+    /**
+     * Gets the base instructions which shall be provided to clients when connecting to
+     * the MCP server
+     *
+     * @returns The initial instructions string
+     */
+    public getBaseInstructions(): string {
+        return this.baseInstructions;
+    }
 }
diff --git a/mcp/packages/server/src/PenpotMcpServer.ts b/mcp/packages/server/src/PenpotMcpServer.ts
index 2c4a2cc792..4cc08e43b3 100644
--- a/mcp/packages/server/src/PenpotMcpServer.ts
+++ b/mcp/packages/server/src/PenpotMcpServer.ts
@@ -56,7 +56,8 @@ export class PenpotMcpServer {
     public readonly pluginBridge: PluginBridge;
     private readonly replServer: ReplServer;
     private apiDocs: ApiDocs;
-    private initialInstructions: string;
+    private readonly penpotHighLevelOverview: string;
+    private readonly connectionInstructions: string;
 
     /**
      * Manages session-specific context, particularly user tokens for each request.
@@ -82,10 +83,11 @@ export class PenpotMcpServer {
         this.configLoader = new ConfigurationLoader(process.cwd());
         this.apiDocs = new ApiDocs();
 
-        // prepare initial instructions
+        // prepare instructions
         let instructions = this.configLoader.getInitialInstructions();
         instructions = instructions.replace("$api_types", this.apiDocs.getTypeNames().join(", "));
-        this.initialInstructions = instructions;
+        this.penpotHighLevelOverview = instructions;
+        this.connectionInstructions = this.configLoader.getBaseInstructions();
 
         this.tools = this.initTools();
 
@@ -124,8 +126,11 @@ export class PenpotMcpServer {
         return !this.isRemoteMode();
     }
 
-    public getInitialInstructions(): string {
-        return this.initialInstructions;
+    /**
+     * Retrieves the high-level overview instructions explaining core Penpot usage.
+     */
+    public getHighLevelOverviewInstructions(): string {
+        return this.penpotHighLevelOverview;
     }
 
     /**
@@ -163,7 +168,7 @@ export class PenpotMcpServer {
     private createMcpServer(): McpServer {
         const server = new McpServer(
             { name: "penpot", version: "1.0.0" },
-            { instructions: this.getInitialInstructions() }
+            { instructions: this.connectionInstructions }
         );
 
         for (const tool of this.tools) {
diff --git a/mcp/packages/server/src/tools/HighLevelOverviewTool.ts b/mcp/packages/server/src/tools/HighLevelOverviewTool.ts
index ada8829771..b16edcb68b 100644
--- a/mcp/packages/server/src/tools/HighLevelOverviewTool.ts
+++ b/mcp/packages/server/src/tools/HighLevelOverviewTool.ts
@@ -21,6 +21,6 @@ export class HighLevelOverviewTool extends Tool<EmptyToolArgs> {
     }
 
     protected async executeCore(args: EmptyToolArgs): Promise<ToolResponse> {
-        return new TextResponse(this.mcpServer.getInitialInstructions());
+        return new TextResponse(this.mcpServer.getHighLevelOverviewInstructions());
     }
 }