It is assumed that if a user calls

%make config-recursive

then options of current port and all it's dependency ports will be processed, but

If this port(A) enables dependency port(Z) via options then $$(${ALL-DEPENDS-LIST}) will not include this port(Z), hence options of port(Z) will not be processed.
If dependency port(B) of port(A) enables another dependency port(X) then options of this port(X) will not be processed either.

Fix: --- /Users/scher/tmp/config-recursive/bsd.port.mk	2012-06-21 22:53:45.000000000 +0400
+++ /Users/scher/tmp/config-recursive/bsd.port.mk-fixed	2012-06-21 22:54:35.000000000 +0400
@@ -6110,8 +6110,8 @@
 
 .if !target(config-recursive)
-config-recursive:
+config-recursive: config-conditional
 	@${ECHO_MSG} "===> Setting user-specified options for ${PKGNAME} and dependencies";
-	@for dir in ${.CURDIR} $$(${ALL-DEPENDS-LIST}); do \
-		(cd $$dir; ${MAKE} config-conditional); \
+	@for dir in $$(${MAKE} run-depends-list build-depends-list | uniq); do \
+		(cd $$dir; ${MAKE} config-recursive); \
 	done
 .endif # config-recursive

Patch attached with submission follows: