diff --git a/configure b/configure
index 508cb0b82e6..1dac6ce9ea0 100755
--- a/configure
+++ b/configure
@@ -14940,7 +14940,8 @@ preloader_EXTRADEFS = $BUILTINFLAG
     ;;
 esac
 as_fn_append LOADER_RULES "
-PROGRAMS = $loader_programs
+EXTRA_TARGETS = $loader_programs
+all: $loader_programs
 "
 
 
diff --git a/configure.ac b/configure.ac
index 8bbb3f7b023..b2cd9324772 100644
--- a/configure.ac
+++ b/configure.ac
@@ -2058,7 +2058,8 @@ preloader_EXTRADEFS = $BUILTINFLAG
     ;;
 esac
 AS_VAR_APPEND([LOADER_RULES],["
-PROGRAMS = $loader_programs
+EXTRA_TARGETS = $loader_programs
+all: $loader_programs
 "])
 
 dnl **** Check for functions ****
diff --git a/server/Makefile.in b/server/Makefile.in
index 19a4facbd2d..e7fb6030575 100644
--- a/server/Makefile.in
+++ b/server/Makefile.in
@@ -45,7 +45,7 @@ C_SRCS = \
 	window.c \
 	winstation.c
 
-PROGRAMS = wineserver wineserver-installed
+EXTRA_TARGETS = wineserver wineserver-installed
 
 MANPAGES = \
 	wineserver.de.UTF-8.man.in \
@@ -54,6 +54,8 @@ MANPAGES = \
 
 OBJS = $(C_SRCS:.c=.o)
 
+all: $(EXTRA_TARGETS)
+
 wineserver: $(OBJS)
 	$(CC) -o $@ $(OBJS) $(LIBWINE) $(LIBPORT) $(LDFLAGS) $(EXTRALIBS) $(LIBS) $(LDRPATH_LOCAL)
 
diff --git a/tools/Makefile.in b/tools/Makefile.in
index 0aecc9f80d4..2ed8179ad26 100644
--- a/tools/Makefile.in
+++ b/tools/Makefile.in
@@ -1,5 +1,5 @@
 PROGRAMS = \
-	make_xftmpl$(EXEEXT)
+	make_xftmpl
 
 MANPAGES = \
 	winemaker.de.UTF-8.man.in \
@@ -7,17 +7,13 @@ MANPAGES = \
 	winemaker.man.in
 
 C_SRCS = \
-	make_xftmpl.c \
-	makedep.c
+	make_xftmpl.c
 
 IN_SRCS = \
 	wineapploader.in
 
 all: wineapploader
 
-make_xftmpl$(EXEEXT): make_xftmpl.o
-	$(CC) $(CFLAGS) -o $@ make_xftmpl.o $(LIBPORT) $(LDFLAGS)
-
 .PHONY: install install-dev uninstall
 
 install install-dev:: install-man-pages
diff --git a/tools/make_makefiles b/tools/make_makefiles
index 266f33a6da7..069d0ae9b7c 100755
--- a/tools/make_makefiles
+++ b/tools/make_makefiles
@@ -110,6 +110,7 @@ my %ignored_source_files = (
     "dlls/wineps.drv/afm2c.c" => 1,
     "dlls/wineps.drv/mkagl.c" => 1,
     "programs/winetest/dist.rc" => 1,
+    "tools/makedep.c" => 1,
 );
 
 my (@linguas, @makefiles, %makefiles);
diff --git a/tools/makedep.c b/tools/makedep.c
index 3c30a0c9ec7..8c5abde2940 100644
--- a/tools/makedep.c
+++ b/tools/makedep.c
@@ -149,6 +149,7 @@ struct makefile
     struct strarray vars;
     struct strarray include_args;
     struct strarray define_args;
+    struct strarray programs;
     struct strarray appmode;
     struct strarray imports;
     struct strarray delayimports;
@@ -1559,6 +1560,19 @@ static struct strarray get_expanded_make_var_array( struct makefile *make, const
 }
 
 
+/*******************************************************************
+ *         file_local_var
+ */
+static char *file_local_var( const char *file, const char *name )
+{
+    char *p, *var;
+
+    var = strmake( "%s_%s", file, name );
+    for (p = var; *p; p++) if (!isalnum( *p )) *p = '_';
+    return var;
+}
+
+
 /*******************************************************************
  *         set_make_variable
  */
@@ -1763,7 +1777,7 @@ static struct strarray output_sources( struct makefile *make, struct strarray *t
     struct strarray includes = empty_strarray;
     struct strarray subdirs = empty_strarray;
     struct strarray phony_targets = empty_strarray;
-    struct strarray all_targets = get_expanded_make_var_array( make, "PROGRAMS" );
+    struct strarray all_targets = empty_strarray;
 
     for (i = 0; i < linguas.count; i++)
         strarray_add( &mo_files, strmake( "%s/%s.mo", top_obj_dir_path( make, "po" ), linguas.str[i] ));
@@ -1793,7 +1807,7 @@ static struct strarray output_sources( struct makefile *make, struct strarray *t
             strarray_add_uniq( &subdirs, subdir );
         }
 
-        extradefs = get_expanded_make_var_array( make, strmake( "%s_EXTRADEFS", obj ));
+        extradefs = get_expanded_make_var_array( make, file_local_var( obj, "EXTRADEFS" ));
 
         if (!strcmp( ext, "y" ))  /* yacc file */
         {
@@ -2269,7 +2283,7 @@ static struct strarray output_sources( struct makefile *make, struct strarray *t
 
         for (i = 0; i < make->imports.count; i++)
             strarray_add( &all_libs, strmake( "-l%s", make->imports.str[i] ));
-        strarray_addall( &all_libs, get_expanded_make_var_array( make, "LIBS" ));
+        strarray_addall( &all_libs, libs );
 
         strarray_add( &all_targets, strmake( "%s%s", testmodule, dll_ext ));
         strarray_add( &clean_files, strmake( "%s%s", stripped, dll_ext ));
@@ -2349,6 +2363,30 @@ static struct strarray output_sources( struct makefile *make, struct strarray *t
         *testlist_files = strarray_replace_extension( &ok_files, ".ok", "" );
     }
 
+    for (i = 0; i < make->programs.count; i++)
+    {
+        char *program = strmake( "%s%s", make->programs.str[i], exe_ext );
+        struct strarray all_libs = empty_strarray;
+        struct strarray objs = get_expanded_make_var_array( make,
+                                                 file_local_var( make->programs.str[i], "OBJS" ));
+
+        if (!objs.count) objs = object_files;
+        output( "%s:", obj_dir_path( make, program ) );
+        output_filenames_obj_dir( make, objs );
+        output( "\n" );
+        output( "\t$(CC) -o $@" );
+        output_filenames_obj_dir( make, objs );
+        strarray_add( &all_libs, top_obj_dir_path( make, "libs/port/libwine_port.a" ));
+        strarray_addall( &all_libs, get_expanded_make_var_array( make, "EXTRALIBS" ));
+        strarray_addall( &all_libs, libs );
+        strarray_addall( &all_libs, get_expanded_make_var_array( make,
+                                                      file_local_var( make->programs.str[i], "LDFLAGS" )));
+        output_filenames( all_libs );
+        output_filename( "$(LDFLAGS)" );
+        output( "\n" );
+        strarray_add( &all_targets, program );
+    }
+
     if (all_targets.count)
     {
         output( "all:" );
@@ -2632,6 +2670,7 @@ static void update_makefile( const char *path )
     make->staticlib     = get_expanded_make_variable( make, "STATICLIB" );
     make->importlib     = get_expanded_make_variable( make, "IMPORTLIB" );
 
+    make->programs      = get_expanded_make_var_array( make, "PROGRAMS" );
     make->appmode       = get_expanded_make_var_array( make, "APPMODE" );
     make->imports       = get_expanded_make_var_array( make, "IMPORTS" );
     make->delayimports  = get_expanded_make_var_array( make, "DELAYIMPORTS" );
@@ -2816,6 +2855,7 @@ int main( int argc, char *argv[] )
 
     if (root_src_dir && !strcmp( root_src_dir, "." )) root_src_dir = NULL;
     if (tools_dir && !strcmp( tools_dir, "." )) tools_dir = NULL;
+    if (!exe_ext) exe_ext = "";
     if (!tools_ext) tools_ext = "";
     if (!dll_prefix) dll_prefix = "";
     if (!man_ext) man_ext = "3w";
diff --git a/tools/sfnt2fon/Makefile.in b/tools/sfnt2fon/Makefile.in
index a97515406dc..5a92d853aa4 100644
--- a/tools/sfnt2fon/Makefile.in
+++ b/tools/sfnt2fon/Makefile.in
@@ -1,9 +1,6 @@
-PROGRAMS = sfnt2fon$(EXEEXT)
+PROGRAMS = sfnt2fon
 
 C_SRCS = sfnt2fon.c
 
 EXTRAINCL = $(FREETYPE_CFLAGS)
-EXTRALIBS = $(FREETYPE_LIBS)
-
-sfnt2fon$(EXEEXT): sfnt2fon.o
-	$(CC) $(CFLAGS) -o $@ sfnt2fon.o $(LIBWINE_STATIC) $(LIBPORT) $(EXTRALIBS) $(LDFLAGS)
+EXTRALIBS = $(FREETYPE_LIBS) $(LIBWINE_STATIC)
diff --git a/tools/widl/Makefile.in b/tools/widl/Makefile.in
index a57f54fb622..0c5595ee7af 100644
--- a/tools/widl/Makefile.in
+++ b/tools/widl/Makefile.in
@@ -1,4 +1,4 @@
-PROGRAMS = widl$(EXEEXT)
+PROGRAMS = widl
 MANPAGES = widl.man.in
 
 C_SRCS = \
@@ -21,14 +21,11 @@ BISON_SRCS = parser.y
 
 widl_EXTRADEFS = -DDEFAULT_INCLUDE_DIR=\"${includedir}/windows/\"
 
-OBJS = $(C_SRCS:.c=.o) $(BISON_SRCS:.y=.tab.o) $(LEX_SRCS:.l=.yy.o)
-
-widl$(EXEEXT): $(OBJS) $(LIBWPP)
-	$(CC) $(CFLAGS) -o $@ $(OBJS) $(LIBWPP) $(LIBPORT) $(LDFLAGS)
+EXTRALIBS = $(LIBWPP)
 
 .PHONY: install install-dev uninstall
 
-install install-dev:: $(PROGRAMS) install-man-pages
+install install-dev:: widl$(EXEEXT) install-man-pages
 	$(INSTALL_PROGRAM) widl$(EXEEXT) $(DESTDIR)$(bindir)/widl$(EXEEXT)
 
 uninstall::
diff --git a/tools/winebuild/Makefile.in b/tools/winebuild/Makefile.in
index f5f460302c3..39589027a51 100644
--- a/tools/winebuild/Makefile.in
+++ b/tools/winebuild/Makefile.in
@@ -1,4 +1,4 @@
-PROGRAMS = winebuild$(EXEEXT)
+PROGRAMS = winebuild
 MANPAGES = winebuild.man.in
 
 C_SRCS = \
@@ -12,14 +12,9 @@ C_SRCS = \
 	spec32.c \
 	utils.c
 
-OBJS = $(C_SRCS:.c=.o)
-
-winebuild$(EXEEXT): $(OBJS)
-	$(CC) $(CFLAGS) -o $@ $(OBJS) $(LIBPORT) $(LDFLAGS)
-
 .PHONY: install install-dev uninstall
 
-install install-dev:: $(PROGRAMS) install-man-pages
+install install-dev:: winebuild$(EXEEXT) install-man-pages
 	$(INSTALL_PROGRAM) winebuild$(EXEEXT) $(DESTDIR)$(bindir)/winebuild$(EXEEXT)
 
 uninstall::
diff --git a/tools/winedump/Makefile.in b/tools/winedump/Makefile.in
index 7b925c35072..dd36cff9d27 100644
--- a/tools/winedump/Makefile.in
+++ b/tools/winedump/Makefile.in
@@ -1,4 +1,4 @@
-PROGRAMS = winedump$(EXEEXT)
+PROGRAMS = winedump
 MANPAGES = winedump.man.in
 
 C_SRCS = \
@@ -23,14 +23,9 @@ C_SRCS = \
 	symbol.c \
 	tlb.c
 
-OBJS = $(C_SRCS:.c=.o)
-
-winedump$(EXEEXT): $(OBJS)
-	$(CC) $(CFLAGS) -o winedump$(EXEEXT) $(OBJS) $(LIBPORT) $(LDFLAGS)
-
 .PHONY: install install-dev uninstall
 
-install install-dev:: $(PROGRAMS) install-man-pages
+install install-dev:: winedump$(EXEEXT) install-man-pages
 	$(INSTALL_PROGRAM) winedump$(EXEEXT) $(DESTDIR)$(bindir)/winedump$(EXEEXT)
 	$(INSTALL_SCRIPT) $(srcdir)/function_grep.pl $(DESTDIR)$(bindir)/function_grep.pl
 
diff --git a/tools/winegcc/Makefile.in b/tools/winegcc/Makefile.in
index 370a2e4b56e..3c0670beab5 100644
--- a/tools/winegcc/Makefile.in
+++ b/tools/winegcc/Makefile.in
@@ -1,7 +1,4 @@
-PROGRAMS = \
-	winecpp$(EXEEXT) \
-	winegcc$(EXEEXT) \
-	wineg++$(EXEEXT)
+PROGRAMS = winegcc
 
 MANPAGES = winegcc.man.in
 
@@ -19,15 +16,16 @@ winegcc_EXTRADEFS = \
 	-DLD="\"$(LD)\"" \
 	-DPRELINK="\"$(PRELINK)\""
 
-winegcc$(EXEEXT): winegcc.o utils.o
-	$(CC) $(CFLAGS) -o $@ winegcc.o utils.o $(LIBPORT) $(LDFLAGS)
+EXTRA_TARGETS = winecpp$(EXEEXT) wineg++$(EXEEXT)
+
+all: $(EXTRA_TARGETS)
 
 winecpp$(EXEEXT) wineg++$(EXEEXT): winegcc$(EXEEXT)
 	$(RM) $@ && $(LN_S) winegcc$(EXEEXT) $@
 
 .PHONY: install install-dev uninstall
 
-install install-dev:: $(PROGRAMS) install-man-pages
+install install-dev:: winegcc$(EXEEXT) install-man-pages
 	$(INSTALL_PROGRAM) winegcc$(EXEEXT) $(DESTDIR)$(bindir)/winegcc$(EXEEXT)
 	cd $(DESTDIR)$(bindir) && $(RM) wineg++$(EXEEXT) && $(LN_S) winegcc$(EXEEXT) wineg++$(EXEEXT)
 	cd $(DESTDIR)$(bindir) && $(RM) winecpp$(EXEEXT) && $(LN_S) winegcc$(EXEEXT) winecpp$(EXEEXT)
diff --git a/tools/wmc/Makefile.in b/tools/wmc/Makefile.in
index c163e34302c..12a917d2908 100644
--- a/tools/wmc/Makefile.in
+++ b/tools/wmc/Makefile.in
@@ -1,6 +1,5 @@
-PROGRAMS = wmc$(EXEEXT)
+PROGRAMS = wmc
 MANPAGES = wmc.man.in
-ALL_LIBS = $(GETTEXTPO_LIBS) $(LIBWINE_STATIC) $(LIBPORT)
 
 C_SRCS = \
 	lang.c \
@@ -12,10 +11,7 @@ C_SRCS = \
 
 BISON_SRCS = mcy.y
 
-OBJS = $(C_SRCS:.c=.o) $(BISON_SRCS:.y=.tab.o)
-
-wmc$(EXEEXT): $(OBJS)
-	$(CC) $(CFLAGS) -o $@ $(OBJS) $(ALL_LIBS) $(LDFLAGS)
+EXTRALIBS = $(GETTEXTPO_LIBS) $(LIBWINE_STATIC)
 
 .PHONY: install install-dev uninstall
 
diff --git a/tools/wrc/Makefile.in b/tools/wrc/Makefile.in
index 056de1cb343..b6f80936776 100644
--- a/tools/wrc/Makefile.in
+++ b/tools/wrc/Makefile.in
@@ -1,6 +1,5 @@
-PROGRAMS = wrc$(EXEEXT)
+PROGRAMS = wrc
 MANPAGES = wrc.man.in
-ALL_LIBS = $(GETTEXTPO_LIBS) $(LIBWPP) $(LIBWINE_STATIC) $(LIBPORT)
 
 C_SRCS = \
 	dumpres.c \
@@ -18,10 +17,7 @@ BISON_SRCS = parser.y
 
 wrc_EXTRADEFS = -DINCLUDEDIR="\"${includedir}\""
 
-OBJS = $(C_SRCS:.c=.o) $(BISON_SRCS:.y=.tab.o) $(LEX_SRCS:.l=.yy.o)
-
-wrc$(EXEEXT): $(OBJS) $(LIBWPP)
-	$(CC) $(CFLAGS) -o $@ $(OBJS) $(ALL_LIBS) $(LDFLAGS)
+EXTRALIBS = $(GETTEXTPO_LIBS) $(LIBWPP) $(LIBWINE_STATIC)
 
 .PHONY: install install-dev uninstall