with the patch below, Apache::Icon/Apache::AutoIndex works fine for me.
running apache_1.3.13-dev, mod_perl-1.24_01-dev, perl-current (5.7.0-dev)
mod_perl built with EVERYTHING=1, USE_DSO=1

copy-n-pasted config from Apache::AutoIndex/README:
      PerlModule Apache::Icon
      PerlModule Apache::AutoIndex

      PerlTransHandler Apache::AutoIndex::transhandler
      PerlHandler Apache::AutoIndex

kill -HUP works just fine too.

--- Icon.xs     1999/01/18 19:21:46     1.1.1.1
+++ Icon.xs     2000/08/21 16:50:04
@@ -18,6 +18,12 @@
 
 PROTOTYPES: DISABLE
 
+void
+END()
+
+    CODE:
+    ap_remove_module(&icon_module);
+
 Apache::Icon
 new(class, r=default_r)
     char *class


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