diff --git a/cli/args/flags.rs b/cli/args/flags.rs
index f4bc0c862f..c60bc0d998 100644
--- a/cli/args/flags.rs
+++ b/cli/args/flags.rs
@@ -2805,7 +2805,11 @@ fn test_parse(flags: &mut Flags, matches: &clap::ArgMatches) {
         .unwrap_or(NonZeroUsize::new(1).unwrap())
     }
   } else if matches.is_present("jobs") {
-    println!(
+    // We can't change this to use the log crate because its not configured
+    // yet at this point since the flags haven't been parsed. This flag is
+    // deprecated though so it's not worth changing the code to use the log
+    // crate here and this is only done for testing anyway.
+    eprintln!(
       "{}",
       crate::colors::yellow("Warning: --jobs flag is deprecated. Use the --parallel flag with possibly the 'DENO_JOBS' environment variable."),
     );
diff --git a/cli/graph_util.rs b/cli/graph_util.rs
index 253d556e0a..2c44e39c29 100644
--- a/cli/graph_util.rs
+++ b/cli/graph_util.rs
@@ -563,7 +563,7 @@ pub async fn create_graph_and_maybe_check(
         lib: ps.options.ts_type_lib_window(),
       })?;
     if let Some(ignored_options) = ts_config_result.maybe_ignored_options {
-      eprintln!("{}", ignored_options);
+      log::warn!("{}", ignored_options);
     }
     let maybe_config_specifier = ps.options.maybe_config_file_specifier();
     let cache = TypeCheckCache::new(&ps.dir.type_checking_cache_db_file_path());
diff --git a/cli/http_util.rs b/cli/http_util.rs
index 5cb843a426..827cc75f5c 100644
--- a/cli/http_util.rs
+++ b/cli/http_util.rs
@@ -276,7 +276,7 @@ impl HttpClient {
     let response_headers = response.headers();
 
     if let Some(warning) = response_headers.get("X-Deno-Warning") {
-      eprintln!(
+      log::warn!(
         "{} {}",
         crate::colors::yellow("Warning"),
         warning.to_str().unwrap()
diff --git a/cli/tests/compile_tests.rs b/cli/tests/compile_tests.rs
index 970ef5ee39..30d882c3b4 100644
--- a/cli/tests/compile_tests.rs
+++ b/cli/tests/compile_tests.rs
@@ -153,7 +153,6 @@ mod compile {
       .wait_with_output()
       .unwrap();
     assert!(!output.status.success());
-    println!("{:#?}", &output);
     assert_eq!(output.stdout, b"hello\n");
     let stderr = String::from_utf8(output.stderr).unwrap();
     let stderr = util::strip_ansi_codes(&stderr).to_string();
diff --git a/cli/tests/info_tests.rs b/cli/tests/info_tests.rs
index 5818fe3be4..a255eab4f3 100644
--- a/cli/tests/info_tests.rs
+++ b/cli/tests/info_tests.rs
@@ -34,7 +34,6 @@ mod init {
       .unwrap();
 
     let str_output = std::str::from_utf8(&output.stdout).unwrap().trim();
-    eprintln!("{}", str_output);
     // check the output of the test.ts program.
     assert!(str_output.contains("emit: "));
     assert_eq!(output.stderr, b"");
diff --git a/cli/tools/bundle.rs b/cli/tools/bundle.rs
index 606bab46fa..95aa52b5b5 100644
--- a/cli/tools/bundle.rs
+++ b/cli/tools/bundle.rs
@@ -143,7 +143,7 @@ fn bundle_module_graph(
     .resolve_ts_config_for_emit(TsConfigType::Bundle)?;
   if ps.options.type_check_mode() == TypeCheckMode::None {
     if let Some(ignored_options) = ts_config_result.maybe_ignored_options {
-      eprintln!("{}", ignored_options);
+      log::warn!("{}", ignored_options);
     }
   }
 
diff --git a/cli/tools/fmt.rs b/cli/tools/fmt.rs
index 7b5797d887..fee59c6dc0 100644
--- a/cli/tools/fmt.rs
+++ b/cli/tools/fmt.rs
@@ -28,6 +28,7 @@ use deno_core::futures;
 use deno_core::parking_lot::Mutex;
 use log::debug;
 use log::info;
+use log::warn;
 use std::fs;
 use std::io::stdin;
 use std::io::stdout;
@@ -325,8 +326,8 @@ async fn check_source_files(
         Err(e) => {
           not_formatted_files_count.fetch_add(1, Ordering::Relaxed);
           let _g = output_lock.lock();
-          eprintln!("Error checking: {}", file_path.to_string_lossy());
-          eprintln!("   {}", e);
+          warn!("Error checking: {}", file_path.to_string_lossy());
+          warn!("   {}", e);
         }
       }
       Ok(())
diff --git a/cli/tools/installer.rs b/cli/tools/installer.rs
index fd7f68b717..cef4befc82 100644
--- a/cli/tools/installer.rs
+++ b/cli/tools/installer.rs
@@ -186,7 +186,7 @@ pub fn uninstall(name: String, root: Option<PathBuf>) -> Result<(), AnyError> {
 
   if file_path.exists() {
     fs::remove_file(&file_path)?;
-    println!("deleted {}", file_path.to_string_lossy());
+    log::info!("deleted {}", file_path.to_string_lossy());
     removed = true
   };
 
@@ -194,7 +194,7 @@ pub fn uninstall(name: String, root: Option<PathBuf>) -> Result<(), AnyError> {
     let file_path = file_path.with_extension("cmd");
     if file_path.exists() {
       fs::remove_file(&file_path)?;
-      println!("deleted {}", file_path.to_string_lossy());
+      log::info!("deleted {}", file_path.to_string_lossy());
       removed = true
     }
   }
@@ -208,11 +208,11 @@ pub fn uninstall(name: String, root: Option<PathBuf>) -> Result<(), AnyError> {
     let file_path = file_path.with_extension(ext);
     if file_path.exists() {
       fs::remove_file(&file_path)?;
-      println!("deleted {}", file_path.to_string_lossy());
+      log::info!("deleted {}", file_path.to_string_lossy());
     }
   }
 
-  println!("✅ Successfully uninstalled {}", name);
+  log::info!("✅ Successfully uninstalled {}", name);
   Ok(())
 }
 
@@ -256,20 +256,20 @@ fn create_install_shim(
     fs::write(path, contents)?;
   }
 
-  println!("✅ Successfully installed {}", shim_data.name);
-  println!("{}", shim_data.file_path.display());
+  log::info!("✅ Successfully installed {}", shim_data.name);
+  log::info!("{}", shim_data.file_path.display());
   if cfg!(windows) {
     let display_path = shim_data.file_path.with_extension("");
-    println!("{} (shell)", display_path.display());
+    log::info!("{} (shell)", display_path.display());
   }
   let installation_dir_str = shim_data.installation_dir.to_string_lossy();
 
   if !is_in_path(&shim_data.installation_dir) {
-    println!("ℹ️  Add {} to PATH", installation_dir_str);
+    log::info!("ℹ️  Add {} to PATH", installation_dir_str);
     if cfg!(windows) {
-      println!("    set PATH=%PATH%;{}", installation_dir_str);
+      log::info!("    set PATH=%PATH%;{}", installation_dir_str);
     } else {
-      println!("    export PATH=\"{}:$PATH\"", installation_dir_str);
+      log::info!("    export PATH=\"{}:$PATH\"", installation_dir_str);
     }
   }
 
@@ -605,7 +605,6 @@ mod tests {
     assert!(file_path.exists());
 
     let content = fs::read_to_string(file_path).unwrap();
-    println!("this is the file path {:?}", content);
     if cfg!(windows) {
       assert!(content.contains(
         r#""run" "--unstable" "http://localhost:4545/echo_server.ts""#
@@ -970,7 +969,6 @@ mod tests {
 
     assert!(file_path.exists());
     let content = fs::read_to_string(file_path).unwrap();
-    println!("{}", content);
     if cfg!(windows) {
       // TODO: see comment above this test
     } else {
diff --git a/cli/tools/standalone.rs b/cli/tools/standalone.rs
index f7a258a737..c276119ead 100644
--- a/cli/tools/standalone.rs
+++ b/cli/tools/standalone.rs
@@ -122,15 +122,15 @@ async fn download_base_binary(
   let client_builder = Client::builder();
   let client = client_builder.build()?;
 
-  println!("Checking {}", &download_url);
+  log::info!("Checking {}", &download_url);
 
   let res = client.get(&download_url).send().await?;
 
   let binary_content = if res.status().is_success() {
-    println!("Download has been found");
+    log::info!("Download has been found");
     res.bytes().await?.to_vec()
   } else {
-    println!("Download could not be found, aborting");
+    log::info!("Download could not be found, aborting");
     std::process::exit(1)
   };
 
diff --git a/cli/tools/vendor/mod.rs b/cli/tools/vendor/mod.rs
index ed0c69501e..02261e34c0 100644
--- a/cli/tools/vendor/mod.rs
+++ b/cli/tools/vendor/mod.rs
@@ -53,7 +53,7 @@ pub async fn vendor(
     &build::RealVendorEnvironment,
   )?;
 
-  eprintln!(
+  log::info!(
     concat!("Vendored {} {} into {} directory.",),
     vendored_count,
     if vendored_count == 1 {
@@ -66,7 +66,7 @@ pub async fn vendor(
   if vendored_count > 0 {
     let import_map_path = raw_output_dir.join("import_map.json");
     if maybe_update_config_file(&output_dir, &ps) {
-      eprintln!(
+      log::info!(
         concat!(
           "\nUpdated your local Deno configuration file with a reference to the ",
           "new vendored import map at {}. Invoking Deno subcommands will now ",
@@ -77,7 +77,7 @@ pub async fn vendor(
         import_map_path.display(),
       );
     } else {
-      eprintln!(
+      log::info!(
         concat!(
           "\nTo use vendored modules, specify the `--import-map {}` flag when ",
           r#"invoking Deno subcommands or add an `"importMap": "<path_to_vendored_import_map>"` "#,
diff --git a/cli/tsc/mod.rs b/cli/tsc/mod.rs
index 18d72e413d..a587de3761 100644
--- a/cli/tsc/mod.rs
+++ b/cli/tsc/mod.rs
@@ -1222,7 +1222,6 @@ mod tests {
     let actual = test_exec(&specifier)
       .await
       .expect("exec should not have errored");
-    eprintln!("diagnostics {:#?}", actual.diagnostics);
     assert!(actual.diagnostics.is_empty());
     assert!(actual.maybe_tsbuildinfo.is_some());
     assert_eq!(actual.stats.0.len(), 12);
@@ -1234,7 +1233,6 @@ mod tests {
     let actual = test_exec(&specifier)
       .await
       .expect("exec should not have errored");
-    eprintln!("diagnostics {:#?}", actual.diagnostics);
     assert!(actual.diagnostics.is_empty());
     assert!(actual.maybe_tsbuildinfo.is_some());
     assert_eq!(actual.stats.0.len(), 12);
@@ -1246,7 +1244,6 @@ mod tests {
     let actual = test_exec(&specifier)
       .await
       .expect("exec should not have errored");
-    eprintln!("diagnostics {:#?}", actual.diagnostics);
     assert!(actual.diagnostics.is_empty());
   }
 }