diff --git a/rust/hyperlane-base/src/settings/checkpoint_syncer.rs b/rust/hyperlane-base/src/settings/checkpoint_syncer.rs
index 9962e1e4e5..342f44732c 100644
--- a/rust/hyperlane-base/src/settings/checkpoint_syncer.rs
+++ b/rust/hyperlane-base/src/settings/checkpoint_syncer.rs
@@ -20,6 +20,8 @@ pub enum CheckpointSyncerConf {
     S3 {
         /// Bucket name
         bucket: String,
+        /// Folder name inside bucket - defaults to the root of the bucket
+        folder: Option<String>,
         /// S3 Region
         region: Region,
     },
@@ -36,13 +38,15 @@ impl FromStr for CheckpointSyncerConf {
 
         match prefix {
             "s3" => {
-                let [bucket, region]: [&str; 2] = suffix
-                    .split('/')
-                    .collect::<Vec<_>>()
-                    .try_into()
-                    .map_err(|_| eyre!("Error parsing storage location; could not split bucket and region ({suffix})"))?;
+                let url_components = suffix.split('/').collect::<Vec<&str>>();
+                let (bucket, region, folder): (&str, &str, Option<String>) = match url_components.len() {
+                    2 => Ok((url_components[0], url_components[1], None)),
+                    3 .. => Ok((url_components[0], url_components[1], Some(url_components[2..].join("/")))),
+                    _ => Err(eyre!("Error parsing storage location; could not split bucket, region and folder ({suffix})"))
+                }?;
                 Ok(CheckpointSyncerConf::S3 {
                     bucket: bucket.into(),
+                    folder,
                     region: region
                         .parse()
                         .context("Invalid region when parsing storage location")?,
@@ -66,8 +70,13 @@ impl CheckpointSyncerConf {
             CheckpointSyncerConf::LocalStorage { path } => {
                 Box::new(LocalStorage::new(path.clone(), latest_index_gauge)?)
             }
-            CheckpointSyncerConf::S3 { bucket, region } => Box::new(S3Storage::new(
+            CheckpointSyncerConf::S3 {
+                bucket,
+                folder,
+                region,
+            } => Box::new(S3Storage::new(
                 bucket.clone(),
+                folder.clone(),
                 region.clone(),
                 latest_index_gauge,
             )),
diff --git a/rust/hyperlane-base/src/settings/parser.rs b/rust/hyperlane-base/src/settings/parser.rs
index 37320a6065..d1aa162909 100644
--- a/rust/hyperlane-base/src/settings/parser.rs
+++ b/rust/hyperlane-base/src/settings/parser.rs
@@ -182,6 +182,8 @@ pub enum RawCheckpointSyncerConf {
     S3 {
         /// Bucket name
         bucket: Option<String>,
+        /// Folder name inside bucket - defaults to the root of the bucket
+        folder: Option<String>,
         /// S3 Region
         region: Option<String>,
     },
@@ -642,10 +644,15 @@ impl FromRawConf<RawCheckpointSyncerConf> for CheckpointSyncerConf {
                 }
                 Ok(Self::LocalStorage { path })
             }
-            RawCheckpointSyncerConf::S3 { bucket, region } => Ok(Self::S3 {
+            RawCheckpointSyncerConf::S3 {
+                bucket,
+                folder,
+                region,
+            } => Ok(Self::S3 {
                 bucket: bucket
                     .ok_or_else(|| eyre!("Missing `bucket` for S3 checkpoint syncer"))
                     .into_config_result(|| cwp + "bucket")?,
+                folder,
                 region: region
                     .ok_or_else(|| eyre!("Missing `region` for S3 checkpoint syncer"))
                     .into_config_result(|| cwp + "region")?
diff --git a/rust/hyperlane-base/src/types/s3_storage.rs b/rust/hyperlane-base/src/types/s3_storage.rs
index cc2c43cbb3..544bf6e229 100644
--- a/rust/hyperlane-base/src/types/s3_storage.rs
+++ b/rust/hyperlane-base/src/types/s3_storage.rs
@@ -28,6 +28,8 @@ const S3_REQUEST_TIMEOUT_SECONDS: u64 = 30;
 pub struct S3Storage {
     /// The name of the bucket.
     bucket: String,
+    /// A specific folder inside the above repo - set to empty string to use the root of the bucket
+    folder: Option<String>,
     /// The region of the bucket.
     region: Region,
     /// A client with AWS credentials.
@@ -44,6 +46,7 @@ impl fmt::Debug for S3Storage {
     fn fmt(&self, f: &mut fmt::Formatter<'_>) -> fmt::Result {
         f.debug_struct("S3Storage")
             .field("bucket", &self.bucket)
+            .field("folder", &self.folder)
             .field("region", &self.region)
             .finish()
     }
@@ -52,7 +55,7 @@ impl fmt::Debug for S3Storage {
 impl S3Storage {
     async fn write_to_bucket(&self, key: String, body: &str) -> Result<()> {
         let req = PutObjectRequest {
-            key,
+            key: self.get_composite_key(key),
             bucket: self.bucket.clone(),
             body: Some(Vec::from(body).into()),
             content_type: Some("application/json".to_owned()),
@@ -69,7 +72,7 @@ impl S3Storage {
     /// Uses an anonymous client. This should only be used for publicly accessible buckets.
     async fn anonymously_read_from_bucket(&self, key: String) -> Result<Option<Vec<u8>>> {
         let req = GetObjectRequest {
-            key,
+            key: self.get_composite_key(key),
             bucket: self.bucket.clone(),
             ..Default::default()
         };
@@ -120,6 +123,13 @@ impl S3Storage {
         })
     }
 
+    fn get_composite_key(&self, key: String) -> String {
+        match self.folder.as_deref() {
+            None | Some("") => key,
+            Some(folder_str) => format!("{}/{}", folder_str, key),
+        }
+    }
+
     fn legacy_checkpoint_key(index: u32) -> String {
         format!("checkpoint_{index}.json")
     }
@@ -209,6 +219,11 @@ impl CheckpointSyncer for S3Storage {
     }
 
     fn announcement_location(&self) -> String {
-        format!("s3://{}/{}", self.bucket, self.region.name())
+        match self.folder.as_deref() {
+            None | Some("") => format!("s3://{}/{}", self.bucket, self.region.name()),
+            Some(folder_str) => {
+                format!("s3://{}/{}/{}", self.bucket, self.region.name(), folder_str)
+            }
+        }
     }
 }