Deprecate F401 ignore-init-module-imports and make default behavior

crates/ruff/tests/snapshots/show_settings__display_default_settings.snap

@@ -201,7 +201,7 @@ linter.allowed_confusables = []
 linter.builtins = []
 linter.dummy_variable_rgx = ^(_+|(_+[a-zA-Z0-9_]*[a-zA-Z0-9]+?))$
 linter.external = []
-linter.ignore_init_module_imports = false
+linter.ignore_init_module_imports = true
 linter.logger_objects = []
 linter.namespace_packages = []
 linter.src = [

crates/ruff_linter/src/rules/pyflakes/rules/unused_import.rs

@@ -154,8 +154,8 @@ pub(crate) fn unused_import(checker: &Checker, scope: &Scope, diagnostics: &mut
         }
     }
 
-    let in_init =
-        checker.settings.ignore_init_module_imports && checker.path().ends_with("__init__.py");
+    let in_init = checker.path().ends_with("__init__.py");
+    let fix_init = in_init && !checker.settings.ignore_init_module_imports;
 
     // Generate a diagnostic for every import, but share a fix across all imports within the same
     // statement (excluding those that are ignored).
@@ -164,7 +164,7 @@ pub(crate) fn unused_import(checker: &Checker, scope: &Scope, diagnostics: &mut
             exceptions.intersects(Exceptions::MODULE_NOT_FOUND_ERROR | Exceptions::IMPORT_ERROR);
         let multiple = imports.len() > 1;
 
-        let fix = if !in_init && !in_except_handler {
+        let fix = if !fix_init && !in_except_handler {
             fix_imports(checker, node_id, &imports).ok()
         } else {
             None

crates/ruff_workspace/src/configuration.rs

@@ -237,6 +237,7 @@ impl Configuration {
                 project_root: project_root.to_path_buf(),
             },
 
+            #[allow(deprecated)]
             linter: LinterSettings {
                 rules: lint.as_rule_table(lint_preview)?,
                 exclude: FilePatternSet::try_from_iter(lint.exclude.unwrap_or_default())?,
@@ -253,7 +254,7 @@ impl Configuration {
                     .dummy_variable_rgx
                     .unwrap_or_else(|| DUMMY_VARIABLE_RGX.clone()),
                 external: lint.external.unwrap_or_default(),
-                ignore_init_module_imports: lint.ignore_init_module_imports.unwrap_or_default(),
+                ignore_init_module_imports: lint.ignore_init_module_imports.unwrap_or(true),
                 line_length,
                 tab_size: self.indent_width.unwrap_or_default(),
                 namespace_packages: self.namespace_packages.unwrap_or_default(),
@@ -650,6 +651,10 @@ impl LintConfiguration {
             .flatten()
             .chain(options.common.extend_unfixable.into_iter().flatten())
             .collect();
+
+        #[allow(deprecated)]
+        let ignore_init_module_imports = options.common.ignore_init_module_imports;
+
         Ok(LintConfiguration {
             exclude: options.exclude.map(|paths| {
                 paths
@@ -692,7 +697,7 @@ impl LintConfiguration {
                 })
                 .unwrap_or_default(),
             external: options.common.external,
-            ignore_init_module_imports: options.common.ignore_init_module_imports,
+            ignore_init_module_imports,
             explicit_preview_rules: options.common.explicit_preview_rules,
             per_file_ignores: options.common.per_file_ignores.map(|per_file_ignores| {
                 per_file_ignores
@@ -1316,6 +1321,7 @@ fn warn_about_deprecated_top_level_lint_options(
         used_options.push("extend-unsafe-fixes");
     }
 
+    #[allow(deprecated)]
     if top_level_options.ignore_init_module_imports.is_some() {
         used_options.push("ignore-init-module-imports");
     }

crates/ruff_workspace/src/options.rs

@@ -692,13 +692,18 @@ pub struct LintCommonOptions {
     /// imports will still be flagged, but with a dedicated message suggesting
     /// that the import is either added to the module's `__all__` symbol, or
     /// re-exported with a redundant alias (e.g., `import os as os`).
+    ///
+    /// This option is enabled by default.
     #[option(
-        default = "false",
+        default = "true",
         value_type = "bool",
         example = r#"
-            ignore-init-module-imports = true
+            ignore-init-module-imports = false
         "#
     )]
+    #[deprecated(
+        note = "`ignore-init-module-imports` is deprecated and is now enabled by default."
+    )]
     pub ignore_init_module_imports: Option<bool>,
 
     /// A list of objects that should be treated equivalently to a