diff --git a/src/Microsoft.DotNet.Tools.Compiler.Csc/Program.cs b/src/Microsoft.DotNet.Tools.Compiler.Csc/Program.cs
index d748c11f8..927af8796 100644
--- a/src/Microsoft.DotNet.Tools.Compiler.Csc/Program.cs
+++ b/src/Microsoft.DotNet.Tools.Compiler.Csc/Program.cs
@@ -38,7 +38,7 @@ namespace Microsoft.DotNet.Tools.Compiler.Csc
 
                     syntax.DefineOption("out", ref outputName, "Name of the output assembly");
 
-                    syntax.DefineOptionList("r|reference", ref references, "Path to a compiler metadata reference");
+                    syntax.DefineOptionList("reference", ref references, "Path to a compiler metadata reference");
 
                     syntax.DefineOptionList("resource", ref resources, "Resources to embed");
 
@@ -95,7 +95,6 @@ namespace Microsoft.DotNet.Tools.Compiler.Csc
                 ? "-debug:full"
                 : "-debug:portable");
 
-            // TODO: Move mono args to mcs compiler
             args.Add("-nowarn:CS1701");
             args.Add("-nowarn:CS1702");
             args.Add("-nowarn:CS1705");
diff --git a/src/Microsoft.DotNet.Tools.Compiler/Program.cs b/src/Microsoft.DotNet.Tools.Compiler/Program.cs
index 312f32683..cc73ea2e3 100644
--- a/src/Microsoft.DotNet.Tools.Compiler/Program.cs
+++ b/src/Microsoft.DotNet.Tools.Compiler/Program.cs
@@ -186,25 +186,25 @@ namespace Microsoft.DotNet.Tools.Compiler
                     if (projectDependency.Project.Files.SourceFiles.Any())
                     {
                         var projectOutputPath = GetProjectOutput(projectDependency.Project, projectDependency.Framework, configuration, outputPath);
-                        compilerArgs.Add($"-r:{projectOutputPath}");
+                        compilerArgs.Add($"--reference:{projectOutputPath}");
                     }
                 }
                 else
                 {
-                    compilerArgs.AddRange(dependency.CompilationAssemblies.Select(r => $"-r:{r.ResolvedPath}"));
+                    compilerArgs.AddRange(dependency.CompilationAssemblies.Select(r => $"--reference:{r.ResolvedPath}"));
                 }
                 compilerArgs.AddRange(dependency.SourceReferences);
             }
 
-            // Add project source files
-            var sourceFiles = context.ProjectFile.Files.SourceFiles;
-            compilerArgs.AddRange(sourceFiles);
-
             if (!AddResources(context.ProjectFile, compilerArgs, intermediateOutputPath))
             {
                 return false;
             }
 
+            // Add project source files
+            var sourceFiles = context.ProjectFile.Files.SourceFiles;
+            compilerArgs.AddRange(sourceFiles);
+
             var compilerName = context.ProjectFile.CompilerName;
             compilerName = compilerName ?? "csc";
 
@@ -495,7 +495,7 @@ namespace Microsoft.DotNet.Tools.Compiler
                     }
                 }
 
-                compilerArgs.Add($"-resource:\"{fileName}\",{name}");
+                compilerArgs.Add($"--resource:\"{fileName}\",{name}");
             }
 
             return true;