diff --git a/mesonbuild/interpreter.py b/mesonbuild/interpreter.py
index 73c21fd91..e820afb71 100644
--- a/mesonbuild/interpreter.py
+++ b/mesonbuild/interpreter.py
@@ -2748,8 +2748,7 @@ external dependencies (including libraries) must go to "dependencies".''')
             self.coredata. base_options[optname] = oobj
         self.emit_base_options_warnings(enabled_opts)
 
-    def program_from_cross_file(self, prognames, silent=False):
-        cross_info = self.environment.cross_info
+    def _program_from_file(self, prognames, bins, silent):
         for p in prognames:
             if hasattr(p, 'held_object'):
                 p = p.held_object
@@ -2762,6 +2761,14 @@ external dependencies (including libraries) must go to "dependencies".''')
                 return ExternalProgramHolder(prog)
         return None
 
+    def program_from_cross_file(self, prognames, silent=False):
+        bins = self.environment.cross_info.config['binaries']
+        return self._program_from_file(prognames, bins, silent)
+
+    def program_from_config_file(self, prognames, silent=False):
+        bins = self.environment.config_info.binaries
+        return self._program_from_file(prognames, bins, silent)
+
     def program_from_system(self, args, silent=False):
         # Search for scripts relative to current subdir.
         # Do not cache found programs because find_program('foobar')
@@ -2816,10 +2823,14 @@ external dependencies (including libraries) must go to "dependencies".''')
     def find_program_impl(self, args, native=False, required=True, silent=True):
         if not isinstance(args, list):
             args = [args]
+
         progobj = self.program_from_overrides(args, silent=silent)
-        if progobj is None and self.build.environment.is_cross_build():
-            if not native:
+        if progobj is None:
+            if self.build.environment.is_cross_build() and not native:
                 progobj = self.program_from_cross_file(args, silent=silent)
+            else:
+                progobj = self.program_from_config_file(args, silent=silent)
+
         if progobj is None:
             progobj = self.program_from_system(args, silent=silent)
         if required and (progobj is None or not progobj.found()):
diff --git a/run_unittests.py b/run_unittests.py
index 007a05bcc..b37562995 100755
--- a/run_unittests.py
+++ b/run_unittests.py
@@ -4522,6 +4522,32 @@ class NativeFileTests(BasePlatformTests):
             f.write('py -3 {} %*'.format(filename))
         return batfile
 
+    def test_multiple_native_files_override(self):
+        wrapper = self.helper_create_binary_wrapper('bash', version='foo')
+        config = self.helper_create_native_file({'binaries': {'bash': wrapper}})
+        wrapper = self.helper_create_binary_wrapper('bash', version='12345')
+        config2 = self.helper_create_native_file({'binaries': {'bash': wrapper}})
+        self.init(self.testcase, extra_args=[
+            '--native-file', config, '--native-file', config2,
+            '-Dcase=find_program'])
+
+    def test_multiple_native_files(self):
+        wrapper = self.helper_create_binary_wrapper('bash', version='12345')
+        config = self.helper_create_native_file({'binaries': {'bash': wrapper}})
+        wrapper = self.helper_create_binary_wrapper('python')
+        config2 = self.helper_create_native_file({'binaries': {'python': wrapper}})
+        self.init(self.testcase, extra_args=[
+            '--native-file', config, '--native-file', config2,
+            '-Dcase=find_program'])
+
+    def _simple_test(self, case, binary):
+        wrapper = self.helper_create_binary_wrapper(binary, version='12345')
+        config = self.helper_create_native_file({'binaries': {binary: wrapper}})
+        self.init(self.testcase, extra_args=['--native-file', config, '-Dcase={}'.format(case)])
+
+    def test_find_program(self):
+        self._simple_test('find_program', 'bash')
+
 
 def unset_envs():
     # For unit tests we must fully control all command lines
diff --git a/test cases/unit/46 native file binary/meson.build b/test cases/unit/46 native file binary/meson.build
index 2e458b0bb..3c99929fe 100644
--- a/test cases/unit/46 native file binary/meson.build	
+++ b/test cases/unit/46 native file binary/meson.build	
@@ -1,3 +1,9 @@
 project('test project')
 
 case = get_option('case')
+
+if case == 'find_program'
+  prog = find_program('bash')
+  result = run_command(prog, ['--version'])
+  assert(result.stdout().strip().endswith('12345'), 'Didn\'t load bash from config file')
+endif
diff --git a/test cases/unit/46 native file binary/meson_options.txt b/test cases/unit/46 native file binary/meson_options.txt
index df535db86..83d34e84e 100644
--- a/test cases/unit/46 native file binary/meson_options.txt	
+++ b/test cases/unit/46 native file binary/meson_options.txt	
@@ -1,5 +1,5 @@
 option(
   'case',
   type : 'combo',
-  choices : []
+  choices : ['find_program']
 )