diff --git a/src/ILCompiler/src/Program.cs b/src/ILCompiler/src/Program.cs
index f142742b01e..81bf2b593f3 100644
--- a/src/ILCompiler/src/Program.cs
+++ b/src/ILCompiler/src/Program.cs
@@ -360,7 +360,7 @@ private int Run(string[] args)
                     }
                 }
 
-                if (_multiFile || _isReadyToRunCodeGen)
+                if (_isReadyToRunCodeGen)
                 {
                     List<EcmaModule> inputModules = new List<EcmaModule>();
 
@@ -370,20 +370,30 @@ private int Run(string[] args)
 
                         if (entrypointModule == null)
                         {
-                            // This is a multifile production build - we need to root all methods
                             compilationRoots.Add(new LibraryRootProvider(module));
                         }
                         inputModules.Add(module);
                     }
 
-                    if (_isReadyToRunCodeGen)
-                    {
-                        compilationGroup = new ReadyToRunSingleAssemblyCompilationModuleGroup(typeSystemContext, inputModules);
-                    }
-                    else
+                    compilationGroup = new ReadyToRunSingleAssemblyCompilationModuleGroup(typeSystemContext, inputModules);
+                }
+                else if (_multiFile)
+                {
+                    List<EcmaModule> inputModules = new List<EcmaModule>();
+
+                    foreach (var inputFile in typeSystemContext.InputFilePaths)
                     {
-                        compilationGroup = new MultiFileSharedCompilationModuleGroup(typeSystemContext, inputModules);
+                        EcmaModule module = typeSystemContext.GetModuleFromPath(inputFile.Value);
+
+                        if (entrypointModule == null)
+                        {
+                            // This is a multifile production build - we need to root all methods
+                            compilationRoots.Add(new LibraryRootProvider(module));
+                        }
+                        inputModules.Add(module);
                     }
+
+                    compilationGroup = new MultiFileSharedCompilationModuleGroup(typeSystemContext, inputModules);
                 }
                 else
                 {