diff --git a/src/directory_processor.rs b/src/directory_processor.rs
index c0dcb52..66f39fd 100644
--- a/src/directory_processor.rs
+++ b/src/directory_processor.rs
@@ -65,6 +65,15 @@ impl DirectoryProcessor {
 
         for entry in entries.flatten() {
             let path = entry.path();
+            
+            // Check if path should be ignored (both files and directories)
+            if let Some(name) = path.file_name().and_then(|n| n.to_str()) {
+                if FILES_TO_IGNORE.iter().any(|&ignore| name.contains(ignore)) {
+                    is_empty = false;
+                    continue;
+                }
+            }
+
             if path.is_dir() {
                 // Recursively check subdirectories
                 let subdir_empty = self.clean_target_directory(&path)?;
@@ -87,14 +96,6 @@ impl DirectoryProcessor {
                     format!("Error getting relative path for {}: {}", path.display(), e)
                 })?;
 
-                // Skip files that should be ignored
-                if let Some(file_name) = path.file_name().and_then(|n| n.to_str()) {
-                    if FILES_TO_IGNORE.iter().any(|&ignore| file_name.ends_with(ignore)) {
-                        is_empty = false;
-                        continue;
-                    }
-                }
-
                 // Check if this file should exist based on source files
                 let should_exist = if let Some(ext) = rel_path.extension().and_then(|e| e.to_str()) {
                     if ext == "pdf" {
diff --git a/src/main.rs b/src/main.rs
index 82491cd..3a6d4c9 100644
--- a/src/main.rs
+++ b/src/main.rs
@@ -10,7 +10,7 @@ pub const FILES_TO_COPY: [&str; 10] = [
     "jpg", "jpeg", "png", "gif", "bmp", "tiff", "webp", "avif", "txt", "md",
 ];
 pub const FILES_TO_CONVERT: [&str; 3] = ["odt", "doc", "docx"];
-pub const FILES_TO_IGNORE: [&str; 1] = ["DS_Store"];
+pub const FILES_TO_IGNORE: [&str; 5] = [".DS_Store", ".syncthing", ".sync-conflict-", ".stfolder", ".stversions"];
 
 #[derive(Parser, Debug)]
 #[command(