diff --git a/src/libcamera/pipeline/rpi/vc4/vc4.cpp b/src/libcamera/pipeline/rpi/vc4/vc4.cpp
index 3236cc70c6a4..efd393a5c4a6 100644
--- a/src/libcamera/pipeline/rpi/vc4/vc4.cpp
+++ b/src/libcamera/pipeline/rpi/vc4/vc4.cpp
@@ -15,6 +15,7 @@
 
 #include "libcamera/internal/device_enumerator.h"
 #include "libcamera/internal/dma_buf_allocator.h"
+#include "libcamera/internal/v4l2_pixelformat.h"
 #include "libcamera/internal/v4l2_subdevice.h"
 
 #include "../common/pipeline_base.h"
@@ -622,6 +623,14 @@ int Vc4CameraData::platformConfigure(const RPi::RPiCameraConfiguration *rpiConfi
 	V4L2VideoDevice *unicam = unicam_[Unicam::Image].dev();
 	V4L2DeviceFormat unicamFormat;
 
+	/*
+	 * The sensor bayer order is the order of the data arriving at the
+	 * Unicam image input, as affected by any transform applied to the
+	 * sensor.
+	 */
+	ColorFilterArray sensorBayerOrder =
+		sensor_->bayerOrder(rpiConfig->combinedTransform_);
+
 	/*
 	 * See which streams are requested, and route the user
 	 * StreamConfiguration appropriately.
@@ -641,9 +650,13 @@ int Vc4CameraData::platformConfigure(const RPi::RPiCameraConfiguration *rpiConfi
 	if (ret)
 		return ret;
 
+	V4L2DeviceFormat ispFormat = unicamFormat;
+	ispFormat.fourcc.toNonGeneric(sensorBayerOrder);
+
 	LOG(RPI, Info) << "Sensor: " << sensor_->id()
 		       << " - Selected sensor format: " << rpiConfig->sensorFormat_
-		       << " - Selected unicam format: " << unicamFormat;
+		       << " - Selected unicam format: " << unicamFormat
+		       << " - Selected ISP input format: " << ispFormat;
 
 	/*
 	 * Configure the Unicam embedded data output format only if the sensor
@@ -684,7 +697,7 @@ int Vc4CameraData::platformConfigure(const RPi::RPiCameraConfiguration *rpiConfi
 	 * 3. Configure the ISP.
 	 */
 
-	ret = isp_[Isp::Input].dev()->setFormat(&unicamFormat);
+	ret = isp_[Isp::Input].dev()->setFormat(&ispFormat);
 	if (ret)
 		return ret;