diff --git a/CHANGELOG.md b/CHANGELOG.md
index 2f4bfe33..c62acd10 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -6,6 +6,7 @@
 
 ### Fixes
 * Added specific error message for single-frame scanimage data [PR #360](https://github.com/catalystneuro/roiextractors/pull/360)
+* Added specific warning for scanimage data with mid-cycle splits [PR #361](https://github.com/catalystneuro/roiextractors/pull/361)
 
 ### Improvements
 * Removed unnecessary import checks for scipy, h5py, and zarr [PR #364](https://github.com/catalystneuro/roiextractors/pull/364)
diff --git a/src/roiextractors/extractors/tiffimagingextractors/scanimagetiffimagingextractor.py b/src/roiextractors/extractors/tiffimagingextractors/scanimagetiffimagingextractor.py
index 155ace8f..e62f1a9d 100644
--- a/src/roiextractors/extractors/tiffimagingextractors/scanimagetiffimagingextractor.py
+++ b/src/roiextractors/extractors/tiffimagingextractors/scanimagetiffimagingextractor.py
@@ -53,6 +53,12 @@ def __init__(
         file_paths = natsorted(self.folder_path.glob(file_pattern))
         if len(file_paths) == 0:
             raise ValueError(f"No files found in folder with pattern: {file_pattern}")
+        if any(file_path.name.endswith("00001_00001.tif") for file_path in file_paths):
+            warn(
+                "ScanImageTiffMultiPlaneMultiFileImagingExtractor does not support mid-cycle splits from ScanImage"
+                " with the characteristic file name pattern 'prefix_00001_00001.tif'. Please raise an issue to request"
+                " this feature: https://github.com/catalystneuro/roiextractors/issues"
+            )
         if not extract_all_metadata:
             metadata = extract_extra_metadata(file_paths[0])
             parsed_metadata = parse_metadata(metadata)
@@ -107,6 +113,12 @@ def __init__(
         file_paths = natsorted(self.folder_path.glob(file_pattern))
         if len(file_paths) == 0:
             raise ValueError(f"No files found in folder with pattern: {file_pattern}")
+        if any(file_path.name.endswith("00001_00001.tif") for file_path in file_paths):
+            warn(
+                "ScanImageTiffSinglePlaneMultiFileImagingExtractor does not support mid-cycle splits from ScanImage"
+                " with the characteristic file name pattern 'prefix_00001_00001.tif'. Please raise an issue to request"
+                " this feature: https://github.com/catalystneuro/roiextractors/issues"
+            )
         if not extract_all_metadata:
             metadata = extract_extra_metadata(file_paths[0])
             parsed_metadata = parse_metadata(metadata)