diff --git a/mcp/.serena/project.yml b/mcp/.serena/project.yml
index c9ed0f7330..f0c29eaaf2 100644
--- a/mcp/.serena/project.yml
+++ b/mcp/.serena/project.yml
@@ -19,7 +19,7 @@ read_only: false
 
 # list of tool names to exclude. We recommend not excluding any tools, see the readme for more details.
 # Below is the complete list of tools for convenience.
-# To make sure you have the latest list of tools, and to view their descriptions, 
+# To make sure you have the latest list of tools, and to view their descriptions,
 # execute `uv run scripts/print_tool_overview.py`.
 #
 #  * `activate_project`: Activates a project by name.
@@ -62,15 +62,15 @@ excluded_tools: []
 # (contrary to the memories, which are loaded on demand).
 initial_prompt: |
   IMPORTANT: You use an idiomatic, object-oriented style.
-  In particular, this implies that, for any non-trivial interfaces, you use interfaces that expect explicitly typed abstractions 
+  In particular, this implies that, for any non-trivial interfaces, you use interfaces that expect explicitly typed abstractions
   rather than mere functions (i.e. use the strategy pattern, for example).
 
-  Comments: 
+  Comments:
   When describing parameters, methods/functions and classes, you use a precise style, where the initial (elliptical) phrase
   clearly defines *what* it is. Any details then follow in subsequent sentences.
 
   When describing what blocks of code do, you also use an elliptical style and start with a lower-case letter unless
-  the comment is a lengthy explanation with at least two sentences (in which case you start with a capital letter, as is 
+  the comment is a lengthy explanation with at least two sentences (in which case you start with a capital letter, as is
   required for sentences).
 # the name by which the project can be referenced within Serena
 project_name: "penpot-mcp"
@@ -128,3 +128,25 @@ encoding: utf-8
 # Note that when using the JetBrains backend, language servers are not used and this list is correspondingly ignored.
 languages:
 - typescript
+
+# time budget (seconds) per tool call for the retrieval of additional symbol information
+# such as docstrings or parameter information.
+# This overrides the corresponding setting in the global configuration; see the documentation there.
+# If null or missing, use the setting from the global configuration.
+symbol_info_budget:
+
+# The language backend to use for this project.
+# If not set, the global setting from serena_config.yml is used.
+# Valid values: LSP, JetBrains
+# 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());
     }
 }