diff --git a/src/GitLink/Linker.cs b/src/GitLink/Linker.cs
index babf439..a2169e0 100644
--- a/src/GitLink/Linker.cs
+++ b/src/GitLink/Linker.cs
@@ -116,9 +116,11 @@ public static class Linker
                 try
                 {
                     Repository repo = repository.Value;
-                    repoSourceFiles = sourceFiles
-                        .Where(f => !f.StartsWithIgnoreCase(options.IntermediateOutputPath))
-                        .ToDictionary(e => e, e => repo.GetNormalizedPath(e));
+
+                    var files = string.IsNullOrEmpty(options.IntermediateOutputPath) ?
+                                sourceFiles : sourceFiles.Where(f => !f.StartsWithIgnoreCase(options.IntermediateOutputPath));
+
+                    repoSourceFiles = files.ToDictionary(e => e, e => repo.GetNormalizedPath(e));
                 }
                 catch (RepositoryNotFoundException)
                 {
@@ -310,4 +312,4 @@ private static string ReplaceSlashes(IProvider provider, string relativePathForU
             return relativePathForUrl;
         }
     }
-}
\ No newline at end of file
+}