diff --git a/Doxyfile.help b/Doxyfile.help
index beda7bbb1..746733827 100644
--- a/Doxyfile.help
+++ b/Doxyfile.help
@@ -241,9 +241,9 @@ ALIASES               += "endfish=</pre>"
 
 ALIASES               += "asis{1}=\1"
 ALIASES               += "blah{1}=\1"
-ALIASES               += "cmnd{1}=\1"
-ALIASES               += "func{1}=\1"
-ALIASES               += "sbin{1}=\1"
+ALIASES               += "cmnd{1}=\b \1"
+ALIASES               += "func{1}=\b \1"
+ALIASES               += "sbin{1}=\b \1"
 ALIASES               += "args{1}=\1"
 ALIASES               += "opts{1}=\1"
 ALIASES               += "vars{1}=\1"
@@ -253,18 +253,18 @@ ALIASES               += "fsfo{1}=\1"
 ALIASES               += "path{1}=\1"
 ALIASES               += "clrv{1}=\1"
 
-ALIASES               += "strg{1}=<b>\1</b>"
+ALIASES               += "strg{1}=\1"
 ALIASES               += "sglq{1}=\'\1\'"
 ALIASES               += "dblq{1}=\"\1\""
 
-ALIASES               += "prmt{1}="
-ALIASES               += "sgst{1}=<em>\1</em>"
+ALIASES               += "prmt{1}=\1"
+ALIASES               += "sgst{1}=\1"
 ALIASES               += "eror{1}=<b>\1</b>"
-ALIASES               += "curs{1}=_"
+ALIASES               += "curs{1}=\1"
 
 ALIASES               += "bold{1}=<b>\1</b>"
 ALIASES               += "emph{1}=<em>\1</em>"
-ALIASES               += "undr{1}=<u>\1</u>"
+ALIASES               += "undr{1}=<em>\1</em>"
 ALIASES               += "span{2}=\1"
 ALIASES               += "spcl{2}=\1"
 
diff --git a/Makefile.in b/Makefile.in
index a9735fbf8..e0c892f2d 100644
--- a/Makefile.in
+++ b/Makefile.in
@@ -269,7 +269,7 @@ user_doc: $(HDR_FILES_SRC) Doxyfile.user $(HTML_SRC) $(HELP_SRC) doc.h $(HDR_FIL
 #
 
 doc: *.h *.cpp doc.h Doxyfile
-	(cat Doxyfile ; echo PROJECT_NUMBER=$(FISH_BUILD_VERSION)) | doxygen - ;
+	(cat Doxyfile; echo PROJECT_NUMBER=$(FISH_BUILD_VERSION)) | doxygen - ;
 
 
 #
@@ -378,7 +378,7 @@ doc_src/fish_lexicon_filter: lexicon.txt doc_src/fish_lexicon_filter.in
 	# Clean the filter input comments and set the shebang as sed can reside in
 	# /bin or /usr/bin and some versions dont allow more than one comment!.
 	sed <$@.in >$@.tmp -e 's|@sed@|'"`command -v sed`"'|' -e '/^[ ]*#[^!]/d'
-	# Scan through the lexicon, transforming each line to something usefue to Doxygen.
+	# Scan through the lexicon, transforming each line to something useful to Doxygen.
 	sed <lexicon.txt >>$@.tmp -n \
 		-e 's|^\([a-z][a-z][a-z][a-z]\) \([a-z_-]*\)$$|s,[[:<:]]\2[[:>:]],@\1{\2},g|p' \
 		-e '$$G;s/.*\n/b tidy/p'; \
@@ -485,11 +485,12 @@ common.o: $(COMMON_FILES)
 # There ought to be something simpler.
 #
 
-share/man: $(HELP_SRC)
+share/man: $(HELP_SRC) doc_src/fish_lexicon_filter
 	-mkdir share/man
 	touch share/man
 	-rm -Rf share/man/man1
-	PROJECT_NUMBER=`echo $(FISH_BUILD_VERSION)| sed "s/-.*//"` ./build_tools/build_documentation.sh Doxyfile.help ./doc_src ./share
+	PROJECT_NUMBER=`echo $(FISH_BUILD_VERSION)| sed "s/-.*//"` INPUT_FILTER=doc_src/fish_lexicon_filter \
+	./build_tools/build_documentation.sh Doxyfile.help ./doc_src ./share
 
 #
 # The build rules for installing/uninstalling fish
@@ -803,7 +804,7 @@ clean:
 	rm -f $(PROGRAMS) fish_tests key_reader
 	rm -f command_list.txt command_list_toc.txt toc.txt
 	rm -f doc_src/index.hdr doc_src/commands.hdr
-	rm -f doc_src/fish_lexicon_filter lexicon.txt
+	rm -f doc_src/fish_lexicon_filter lexicon.txt debug-lexicon.log
 	rm -f FISH-BUILD-VERSION-FILE
 	if test "$(HAVE_DOXYGEN)" = 1; then \
 		rm -rf doc user_doc share/man; \
diff --git a/build_tools/build_documentation.sh b/build_tools/build_documentation.sh
index 0c4a2aac8..2705898e9 100755
--- a/build_tools/build_documentation.sh
+++ b/build_tools/build_documentation.sh
@@ -37,10 +37,12 @@ resolve_path()
 # Expand relative paths
 DOXYFILE=`resolve_path "$DOXYFILE"`
 INPUTDIR=`resolve_path "$INPUTDIR"`
+INPUTFILTER=`resolve_path "$INPUT_FILTER"`
 OUTPUTDIR=`resolve_path "$OUTPUTDIR"`
 
 echo "      doxygen file: $DOXYFILE"
 echo "   input directory: $INPUTDIR"
+echo "      input filter: $INPUTFILTER"
 echo "  output directory: $OUTPUTDIR"
 echo "          skipping: $CONDEMNED_PAGES"
 
@@ -87,6 +89,7 @@ done
 # This prevents doxygen from generating "documentation" for intermediate directories
 DOXYPARAMS=$(cat <<EOF
 PROJECT_NUMBER=$PROJECT_NUMBER
+INPUT_FILTER=$INPUTFILTER
 INPUT=.
 OUTPUT_DIRECTORY=$OUTPUTDIR
 QUIET=YES
@@ -100,7 +103,7 @@ find "${OUTPUTDIR}" -name "*.1" -delete
 
 # Run doxygen
 cd "$TMPLOC"
-(cat "${DOXYFILE}" ; echo "$DOXYPARAMS";) | "$DOXYGENPATH" - 
+(cat "${DOXYFILE}" ; echo "$DOXYPARAMS";) | "$DOXYGENPATH" -
 
 # Remember errors
 RESULT=$?
@@ -110,15 +113,16 @@ if test "$RESULT" = 0 ; then
 
 	# Postprocess the files
 	for i in "$INPUTDIR"/*.txt; do
-		# It would be nice to use -i here for edit in place, but that is not portable 
+		# It would be nice to use -i here for edit in place, but that is not portable
 		CMD_NAME=`basename "$i" .txt`;
-		sed -e "s/\(.\)\\.SH/\1/" -e "s/$CMD_NAME *\\\\- *\"\(.*\)\"/\1/" "${CMD_NAME}.1" > "${CMD_NAME}.1.tmp"
+		sed < ${CMD_NAME}.1 > ${CMD_NAME}.1.tmp \
+            -e "/.SH \"$CMD_NAME/d" \
+            -e "s/^$CMD_NAME * \\\- \([^ ]*\) /\\\fB\1\\\fP -/"
 		mv "${CMD_NAME}.1.tmp" "${CMD_NAME}.1"
 	done
-	
+
 	# Erase condemned pages
 	rm -f $CONDEMNED_PAGES
-	
 fi
 
 # Destroy TMPLOC