diff --git a/src/internal/fuzz/encoding.go b/src/internal/fuzz/encoding.go
index c95d9e088b..c2eed7045e 100644
--- a/src/internal/fuzz/encoding.go
+++ b/src/internal/fuzz/encoding.go
@@ -12,6 +12,7 @@ import (
 	"go/token"
 	"math"
 	"strconv"
+	"strings"
 	"unicode/utf8"
 )
 
@@ -106,8 +107,9 @@ func unmarshalCorpusFile(b []byte) ([]any, error) {
 	if len(lines) < 2 {
 		return nil, fmt.Errorf("must include version and at least one value")
 	}
-	if string(lines[0]) != encVersion1 {
-		return nil, fmt.Errorf("unknown encoding version: %s", lines[0])
+	version := strings.TrimSuffix(string(lines[0]), "\r")
+	if version != encVersion1 {
+		return nil, fmt.Errorf("unknown encoding version: %s", version)
 	}
 	var vals []any
 	for _, line := range lines[1:] {
diff --git a/src/internal/fuzz/encoding_test.go b/src/internal/fuzz/encoding_test.go
index 8e3800eb77..6f6173d7e0 100644
--- a/src/internal/fuzz/encoding_test.go
+++ b/src/internal/fuzz/encoding_test.go
@@ -214,6 +214,11 @@ uint(18446744073709551615)`
 				}
 			}(),
 		},
+		{
+			desc: "windows new line",
+			in:   "go test fuzz v1\r\nint(0)\r\n",
+			want: "go test fuzz v1\nint(0)",
+		},
 	}
 	for _, test := range tests {
 		t.Run(test.desc, func(t *testing.T) {