diff --git a/bin/__snapshots__/cli.test.js.snap b/bin/__snapshots__/cli.test.js.snap
index 18b0c56..53049e0 100644
--- a/bin/__snapshots__/cli.test.js.snap
+++ b/bin/__snapshots__/cli.test.js.snap
@@ -132,6 +132,17 @@ Options:
 "
 `;
 
+exports[`openapi-format CLI command should respect boolean options from .openapiformatrc 1`] = `
+"================================================================================
+OpenAPI-Format CLI settings:
+- .openapiformatrc:	/Users/joseph/oss/openapi-format/.openapiformatrc
+- Input file:		test/yaml-no-sort-keep-comments/input.yaml
+================================================================================
+✅  OpenAPI formatted successfully
+================================================================================
+"
+`;
+
 exports[`openapi-format CLI command should show unused components 1`] = `
 "================================================================================
 OpenAPI-Format CLI settings:
diff --git a/bin/cli.js b/bin/cli.js
index 6414e9f..9ea4c86 100755
--- a/bin/cli.js
+++ b/bin/cli.js
@@ -90,9 +90,14 @@ async function run(oaFile, options) {
 
   // Merge .openapiformatrc and configOptions
   configOptions = Object.assign({}, defaultOptions, configOptions);
+  // Preserve config file values for options that have CLI defaults
+  // These must be set before Object.assign to prevent CLI defaults from overwriting config values
   options.lineWidth = configOptions?.lineWidth ?? options.lineWidth;
   options.sort = configOptions?.sort ?? options.sort;
   options.bundle = configOptions?.bundle ?? options.bundle;
+  options.keepComments = configOptions?.keepComments ?? options.keepComments;
+  options.sortComponentsProps = configOptions?.sortComponentsProps ?? options.sortComponentsProps;
+  options.split = configOptions?.split ?? options.split;
 
   // Merge configOptions and CLI options
   options = Object.assign({}, configOptions, options);
diff --git a/bin/cli.test.js b/bin/cli.test.js
index 6f4b2bd..3f1297d 100644
--- a/bin/cli.test.js
+++ b/bin/cli.test.js
@@ -146,6 +146,63 @@ describe('openapi-format CLI command', () => {
     fs.readFileSync.mockRestore();
   });
 
+  it('should respect boolean options from .openapiformatrc', async () => {
+    // Create a temporary .openapiformatrc file with boolean options
+    const defaultConfigPath = '.openapiformatrc';
+    const configContent = {
+      keepComments: true,
+      sortComponentsProps: true,
+      split: false
+    };
+
+    // Write the config file
+    fs.writeFileSync(defaultConfigPath, JSON.stringify(configContent, null, 2));
+
+    try {
+      const inputFile = `test/yaml-no-sort-keep-comments/input.yaml`;
+      let result = await testUtils.cli([inputFile, '--no-sort'], '.');
+      expect(result.code).toBe(0);
+      expect(result.stdout).toContain('formatted successfully');
+      expect(result.stdout).toMatchSnapshot();
+      // The output should preserve comments due to keepComments: true in config
+      expect(result.stderr).toContain('#');
+    } finally {
+      // Clean up - remove the temporary config file
+      if (fs.existsSync(defaultConfigPath)) {
+        fs.unlinkSync(defaultConfigPath);
+      }
+    }
+  });
+
+  it('should use config file boolean options when set', async () => {
+    // Create a config file with boolean options set to non-default values
+    const defaultConfigPath = '.openapiformatrc';
+    const configContent = {
+      keepComments: true,
+      sortComponentsProps: true,
+      split: false,
+      sort: false
+    };
+
+    // Write the config file
+    fs.writeFileSync(defaultConfigPath, JSON.stringify(configContent, null, 2));
+
+    try {
+      const inputFile = `test/yaml-no-sort-keep-comments/input.yaml`;
+      // Config file values should be applied
+      let result = await testUtils.cli([inputFile], '.');
+      expect(result.code).toBe(0);
+      expect(result.stdout).toContain('formatted successfully');
+      // The output should preserve comments due to config file setting
+      expect(result.stderr).toContain('#');
+    } finally {
+      // Clean up - remove the temporary config file
+      if (fs.existsSync(defaultConfigPath)) {
+        fs.unlinkSync(defaultConfigPath);
+      }
+    }
+  });
+
   it('should use the casingFile', async () => {
     const path = `test/yaml-casing`;
     const inputFile = `${path}/input.yaml`;
diff --git a/test/_cli-configfile/configFile.json b/test/_cli-configfile/configFile.json
index 8ecc1fb..06362cc 100644
--- a/test/_cli-configfile/configFile.json
+++ b/test/_cli-configfile/configFile.json
@@ -22,5 +22,8 @@
   },
   "no-sort": false,
   "lineWidth": 80,
-  "rename": "Updated API"
+  "rename": "Updated API",
+  "keepComments": true,
+  "sortComponentsProps": true,
+  "split": false
 }
\ No newline at end of file