diff --git a/cli/tsc/dts/lib.deno.ns.d.ts b/cli/tsc/dts/lib.deno.ns.d.ts
index 11780d0110de44..4ecb9a5756a9c6 100644
--- a/cli/tsc/dts/lib.deno.ns.d.ts
+++ b/cli/tsc/dts/lib.deno.ns.d.ts
@@ -1830,8 +1830,8 @@ declare namespace Deno {
    * an error occurs. It resolves to the number of bytes copied or rejects with
    * the first error encountered while copying.
    *
-   * @deprecated Use {@linkcode ReadableStream.pipeTo} instead.
-   * {@linkcode Deno.copy} will be removed in v2.0.0.
+   * @deprecated Use {@linkcode https://deno.land/std/io/copy.ts?s=copy | copy}
+   * instead. {@linkcode Deno.copy} will be removed in v2.0.0.
    *
    * @category I/O
    *
@@ -1848,8 +1848,8 @@ declare namespace Deno {
   /**
    * Turns a Reader, `r`, into an async iterator.
    *
-   * @deprecated Use {@linkcode ReadableStream} instead. {@linkcode Deno.iter}
-   * will be removed in v2.0.0.
+   * @deprecated Use {@linkcode ReadableStream} instead.
+   * {@linkcode Deno.iter} will be removed in v2.0.0.
    *
    * @category I/O
    */
@@ -2875,9 +2875,9 @@ declare namespace Deno {
   /**
    * A variable-sized buffer of bytes with `read()` and `write()` methods.
    *
-   * @deprecated Use the
-   * [Web Streams API]{@link https://developer.mozilla.org/en-US/docs/Web/API/Streams_API}
-   * instead. {@linkcode Deno.Buffer} will be removed in v2.0.0.
+   * @deprecated Use
+   * {@linkcode https://deno.land/std/io/buffer.ts?s=Buffer | Buffer} instead.
+   * {@linkcode Deno.Buffer} will be removed in v2.0.0.
    *
    * @category I/O
    */
@@ -2951,8 +2951,8 @@ declare namespace Deno {
    * Read Reader `r` until EOF (`null`) and resolve to the content as
    * Uint8Array`.
    *
-   * @deprecated Use {@linkcode ReadableStream} and
-   * [`toArrayBuffer()`](https://deno.land/std/streams/to_array_buffer.ts?s=toArrayBuffer)
+   * @deprecated Use
+   * {@linkcode https://deno.land/std/io/read_all.ts?s=readAll | readAll}
    * instead. {@linkcode Deno.readAll} will be removed in v2.0.0.
    *
    * @category I/O
@@ -2963,8 +2963,8 @@ declare namespace Deno {
    * Synchronously reads Reader `r` until EOF (`null`) and returns the content
    * as `Uint8Array`.
    *
-   * @deprecated Use {@linkcode ReadableStream} and
-   * [`toArrayBuffer()`](https://deno.land/std/streams/to_array_buffer.ts?s=toArrayBuffer)
+   * @deprecated Use
+   * {@linkcode https://deno.land/std/io/read_all.ts?s=readAllSync | readAllSync}
    * instead. {@linkcode Deno.readAllSync} will be removed in v2.0.0.
    *
    * @category I/O
@@ -2974,9 +2974,9 @@ declare namespace Deno {
   /**
    * Write all the content of the array buffer (`arr`) to the writer (`w`).
    *
-   * @deprecated Use {@linkcode WritableStream}, {@linkcode ReadableStream.from}
-   * and {@linkcode ReadableStream.pipeTo} instead. {@linkcode Deno.writeAll}
-   * will be removed in v2.0.0.
+   * @deprecated Use
+   * {@linkcode https://deno.land/std/io/write_all.ts?s=writeAll | writeAll}
+   * instead. {@linkcode Deno.writeAll} will be removed in v2.0.0.
    *
    * @category I/O
    */
@@ -2986,9 +2986,9 @@ declare namespace Deno {
    * Synchronously write all the content of the array buffer (`arr`) to the
    * writer (`w`).
    *
-   * @deprecated Use {@linkcode WritableStream}, {@linkcode ReadableStream.from}
-   * and {@linkcode ReadableStream.pipeTo} instead.
-   * {@linkcode Deno.writeAllSync} will be removed in v2.0.0.
+   * @deprecated Use
+   * {@linkcode https://deno.land/std/io/write_all.ts?s=writeAllSync | writeAllSync}
+   * instead. {@linkcode Deno.writeAllSync} will be removed in v2.0.0.
    *
    * @category I/O
    */
@@ -4062,7 +4062,7 @@ declare namespace Deno {
     /**
      * Stops watching the file system and closes the watcher resource.
      *
-     * @deprecated Will be removed in v2.0.0.
+     * @deprecated {@linkcode Deno.FsWatcher.return} will be removed in v2.0.0.
      */
     return?(value?: any): Promise<IteratorResult<FsEvent>>;
     [Symbol.asyncIterator](): AsyncIterableIterator<FsEvent>;
diff --git a/ext/io/12_io.js b/ext/io/12_io.js
index 9f4a3766b714a5..2a0d589a758644 100644
--- a/ext/io/12_io.js
+++ b/ext/io/12_io.js
@@ -3,8 +3,7 @@
 // Interfaces 100% copied from Go.
 // Documentation liberally lifted from them too.
 // Thank you! We love Go! <3
-
-import { core, primordials } from "ext:core/mod.js";
+import { core, internals, primordials } from "ext:core/mod.js";
 const {
   op_stdin_set_raw,
   op_is_terminal,
@@ -40,6 +39,11 @@ async function copy(
   dst,
   options,
 ) {
+  internals.warnOnDeprecatedApi(
+    "Deno.copy()",
+    new Error().stack,
+    "Use `copy()` from `https://deno.land/std/io/copy.ts` instead.",
+  );
   let n = 0;
   const bufSize = options?.bufSize ?? DEFAULT_BUFFER_SIZE;
   const b = new Uint8Array(bufSize);
@@ -65,6 +69,11 @@ async function* iter(
   r,
   options,
 ) {
+  internals.warnOnDeprecatedApi(
+    "Deno.iter()",
+    new Error().stack,
+    "Use `ReadableStream` instead.",
+  );
   const bufSize = options?.bufSize ?? DEFAULT_BUFFER_SIZE;
   const b = new Uint8Array(bufSize);
   while (true) {
@@ -81,6 +90,11 @@ function* iterSync(
   r,
   options,
 ) {
+  internals.warnOnDeprecatedApi(
+    "Deno.iterSync()",
+    new Error().stack,
+    "Use `ReadableStream` instead.",
+  );
   const bufSize = options?.bufSize ?? DEFAULT_BUFFER_SIZE;
   const b = new Uint8Array(bufSize);
   while (true) {
diff --git a/runtime/js/13_buffer.js b/runtime/js/13_buffer.js
index 36d979e75aadee..cac1a66944b61b 100644
--- a/runtime/js/13_buffer.js
+++ b/runtime/js/13_buffer.js
@@ -4,7 +4,7 @@
 // Copyright 2009 The Go Authors. All rights reserved. BSD license.
 // https://github.com/golang/go/blob/master/LICENSE
 
-import { primordials } from "ext:core/mod.js";
+import { internals, primordials } from "ext:core/mod.js";
 const {
   ArrayBufferPrototypeGetByteLength,
   TypedArrayPrototypeSubarray,
@@ -45,6 +45,11 @@ class Buffer {
   #off = 0; // read at buf[off], write at buf[buf.byteLength]
 
   constructor(ab) {
+    internals.warnOnDeprecatedApi(
+      "new Deno.Buffer()",
+      new Error().stack,
+      "Use `Buffer` from `https://deno.land/std/io/buffer.ts` instead.",
+    );
     if (ab == null) {
       this.#buf = new Uint8Array(0);
       return;
@@ -230,18 +235,33 @@ class Buffer {
 }
 
 async function readAll(r) {
+  internals.warnOnDeprecatedApi(
+    "Deno.readAll()",
+    new Error().stack,
+    "Use `readAll()` from `https://deno.land/std/io/read_all.ts` instead.",
+  );
   const buf = new Buffer();
   await buf.readFrom(r);
   return buf.bytes();
 }
 
 function readAllSync(r) {
+  internals.warnOnDeprecatedApi(
+    "Deno.readAllSync()",
+    new Error().stack,
+    "Use `readAllSync()` from `https://deno.land/std/io/read_all.ts` instead.",
+  );
   const buf = new Buffer();
   buf.readFromSync(r);
   return buf.bytes();
 }
 
 async function writeAll(w, arr) {
+  internals.warnOnDeprecatedApi(
+    "Deno.writeAll()",
+    new Error().stack,
+    "Use `writeAll()` from `https://deno.land/std/io/write_all.ts` instead.",
+  );
   let nwritten = 0;
   while (nwritten < arr.length) {
     nwritten += await w.write(TypedArrayPrototypeSubarray(arr, nwritten));
@@ -249,6 +269,11 @@ async function writeAll(w, arr) {
 }
 
 function writeAllSync(w, arr) {
+  internals.warnOnDeprecatedApi(
+    "Deno.writeAllSync()",
+    new Error().stack,
+    "Use `writeAllSync()` from `https://deno.land/std/io/write_all.ts` instead.",
+  );
   let nwritten = 0;
   while (nwritten < arr.length) {
     nwritten += w.writeSync(TypedArrayPrototypeSubarray(arr, nwritten));
diff --git a/runtime/js/40_fs_events.js b/runtime/js/40_fs_events.js
index 13cacc36be3940..0bc61433532b4a 100644
--- a/runtime/js/40_fs_events.js
+++ b/runtime/js/40_fs_events.js
@@ -1,6 +1,6 @@
 // Copyright 2018-2024 the Deno authors. All rights reserved. MIT license.
 
-import { core, primordials } from "ext:core/mod.js";
+import { core, internals, primordials } from "ext:core/mod.js";
 const {
   BadResourcePrototype,
   InterruptedPrototype,
@@ -49,6 +49,10 @@ class FsWatcher {
   // TODO(kt3k): This is deprecated. Will be removed in v2.0.
   // See https://github.com/denoland/deno/issues/10577 for details
   return(value) {
+    internals.warnOnDeprecatedApi(
+      "Deno.FsWatcher.return()",
+      new Error().stack,
+    );
     core.close(this.rid);
     return PromiseResolve({ value, done: true });
   }
diff --git a/runtime/js/90_deno_ns.js b/runtime/js/90_deno_ns.js
index 5bcc68a57c78c4..bba1f30d78b45a 100644
--- a/runtime/js/90_deno_ns.js
+++ b/runtime/js/90_deno_ns.js
@@ -43,7 +43,10 @@ class FsFile extends fs.FsFile {
 }
 
 const denoNs = {
-  metrics: core.metrics,
+  metrics: () => {
+    internals.warnOnDeprecatedApi("Deno.metrics()", new Error().stack);
+    return core.metrics();
+  },
   Process: process.Process,
   run: process.run,
   isatty: tty.isatty,
diff --git a/runtime/js/99_main.js b/runtime/js/99_main.js
index 3fee1109b0cc1a..7057f6d6271b48 100644
--- a/runtime/js/99_main.js
+++ b/runtime/js/99_main.js
@@ -155,6 +155,7 @@ function warnOnDeprecatedApi(apiName, stack, ...suggestions) {
     "%c\u251c This API will be removed in Deno 2.0. Make sure to upgrade to a stable API before then.",
     "color: yellow;",
   );
+
   for (let i = 0; i < suggestions.length; i++) {
     const suggestion = suggestions[i];
     console.error("%c\u2502", "color: yellow;");