diff --git a/docs/source/user-guide/latest/metrics.md b/docs/source/user-guide/latest/metrics.md
index 509d0ae8c0..0579b30818 100644
--- a/docs/source/user-guide/latest/metrics.md
+++ b/docs/source/user-guide/latest/metrics.md
@@ -64,3 +64,26 @@ Here is a guide to some of the native metrics.
 | `ipc_time`        | Time to encode batches in IPC format and compress using ZSTD. |
 | `mempool_time`    | Time interacting with memory pool.                            |
 | `write_time`      | Time spent writing bytes to disk.                             |
+
+## Task-Level Input Metrics on Spark 4.1+
+
+Comet's native scans set `inputMetrics.bytesRead` to the actual file IO performed by the
+DataFusion parquet reader (`bytes_scanned`). This is the truthful number you would see at the
+filesystem layer.
+
+Spark 4.1 changed its own parquet reader to pre-open the `SeekableInputStream` and read the file
+footer outside the `FileScanRDD.compute()` thread. Spark's `inputMetrics.bytesRead` is updated
+from a Hadoop FileSystem thread-local byte counter that only captures reads on the
+`compute()` thread, so reads serviced by the pre-opened stream's internal buffer go uncounted.
+The under-count is largest when the file fits in the pre-fetched buffer (tiny files, unit test
+sizes) and shrinks as files grow large enough that subsequent row-group reads cross the buffer
+and trigger fresh FS reads on the `compute()` thread.
+
+This is purely an observability difference: `inputMetrics.bytesRead` is reported to listeners
+and the Spark UI but is not consumed by the planner, the optimizer, or AQE, so the discrepancy
+does not affect query plans, partitioning, or correctness. Records read (`recordsRead`) is
+unaffected and remains exactly equal between Comet and Spark.
+
+If you compare Comet's `bytesRead` against vanilla Spark's on Spark 4.1+ (via the Spark UI or
+the REST API), expect Comet's number to be substantially larger for small files, and closer to
+Spark's for large files. Comet's value reflects what the storage layer actually delivered.
diff --git a/spark/src/test/scala/org/apache/spark/sql/comet/CometTaskMetricsSuite.scala b/spark/src/test/scala/org/apache/spark/sql/comet/CometTaskMetricsSuite.scala
index 06bbb50272..05bdfceb1d 100644
--- a/spark/src/test/scala/org/apache/spark/sql/comet/CometTaskMetricsSuite.scala
+++ b/spark/src/test/scala/org/apache/spark/sql/comet/CometTaskMetricsSuite.scala
@@ -192,7 +192,6 @@ class CometTaskMetricsSuite extends CometTestBase with AdaptiveSparkPlanHelper {
   }
 
   test("native_datafusion scan reports task-level input metrics matching Spark") {
-    assume(!isSpark41Plus, "https://github.com/apache/datafusion-comet/issues/4098")
     val totalRows = 10000
     withTempPath { dir =>
       spark
@@ -230,15 +229,11 @@ class CometTaskMetricsSuite extends CometTestBase with AdaptiveSparkPlanHelper {
       // (e.g. footer reads, page headers, buffering granularity).
       assert(sparkBytes > 0, s"Spark bytesRead should be > 0, got $sparkBytes")
       assert(cometBytes > 0, s"Comet bytesRead should be > 0, got $cometBytes")
-      val ratio = cometBytes.toDouble / sparkBytes.toDouble
-      assert(
-        ratio >= 0.7 && ratio <= 1.3,
-        s"bytesRead ratio out of range: comet=$cometBytes, spark=$sparkBytes, ratio=$ratio")
+      assertCometBytesReadInRange(cometBytes, sparkBytes)
     }
   }
 
   test("input metrics aggregate across multiple native scans in a join") {
-    assume(!isSpark41Plus, "https://github.com/apache/datafusion-comet/issues/4098")
     withTempPath { dir1 =>
       withTempPath { dir2 =>
         // Create two separate parquet tables
@@ -283,16 +278,34 @@ class CometTaskMetricsSuite extends CometTestBase with AdaptiveSparkPlanHelper {
         assert(cometRecords > 0, s"Comet recordsRead should be > 0, got $cometRecords")
 
         // Both sides should contribute to the total bytes
-        val ratio = cometBytes.toDouble / sparkBytes.toDouble
-        assert(
-          ratio >= 0.7 && ratio <= 1.3,
-          s"bytesRead ratio out of range: comet=$cometBytes, spark=$sparkBytes, ratio=$ratio")
+        assertCometBytesReadInRange(cometBytes, sparkBytes)
       }
     }
   }
 
+  /**
+   * Compare Comet's `bytesRead` against Spark's baseline. On Spark <= 4.0 the two readers report
+   * the same Hadoop-FS thread-local byte count, so we keep a tight 0.7-1.3 band. Spark 4.1
+   * pre-opens the parquet `SeekableInputStream` outside the FileScanRDD `compute()` thread, so
+   * its `getFSBytesReadOnThreadCallback` no longer captures most of the parquet IO and
+   * `inputMetrics.bytesRead` is now a small fraction of the actual file IO. Comet (via
+   * DataFusion's `bytes_scanned`) still reports actual bytes, so the only safe cross-version
+   * invariant on 4.1+ is that Comet >= Spark and both are positive.
+   */
+  private def assertCometBytesReadInRange(cometBytes: Long, sparkBytes: Long): Unit = {
+    if (isSpark41Plus) {
+      assert(
+        cometBytes >= sparkBytes,
+        s"Comet bytesRead should be >= Spark bytesRead on 4.1+: comet=$cometBytes, spark=$sparkBytes")
+    } else {
+      val ratio = cometBytes.toDouble / sparkBytes.toDouble
+      assert(
+        ratio >= 0.7 && ratio <= 1.3,
+        s"bytesRead ratio out of range: comet=$cometBytes, spark=$sparkBytes, ratio=$ratio")
+    }
+  }
+
   test("input metrics aggregate across multiple native scans in a union") {
-    assume(!isSpark41Plus, "https://github.com/apache/datafusion-comet/issues/4098")
     withTempPath { dir1 =>
       withTempPath { dir2 =>
         spark
@@ -335,10 +348,7 @@ class CometTaskMetricsSuite extends CometTestBase with AdaptiveSparkPlanHelper {
         assert(sparkRecords > 0, s"Spark recordsRead should be > 0, got $sparkRecords")
         assert(cometRecords > 0, s"Comet recordsRead should be > 0, got $cometRecords")
 
-        val ratio = cometBytes.toDouble / sparkBytes.toDouble
-        assert(
-          ratio >= 0.7 && ratio <= 1.3,
-          s"bytesRead ratio out of range: comet=$cometBytes, spark=$sparkBytes, ratio=$ratio")
+        assertCometBytesReadInRange(cometBytes, sparkBytes)
       }
     }
   }