Whenever I do a "make index" (for the ports tree as a whole, not for an individual port), I get a warning message saying: Warning: Duplicate INDEX entry: mldonkey-core-3.1.7.2 I looked into this for a while, and I think I know what's going on. I am not really all that familiar with the ins and outs of the build system, though, so I'm not sure if I'm correct, but: I found that the message is coming from within /usr/ports/Tools/make_index, and it happens based on the "name" having already been handled. From there I tried to figure out where this "name" was coming from. Eventually I learned that if there are two or more ports that have the same base name (not sure that "base" is the proper term here), they are supposed to be distinguished from each other by "PKGNAMEPREFIX" and "PKGNAMESUFFIX" (and maybe other things too, I dunno). So, I looked for mldonkey ports. I found three: net-p2p/mldonkey, net-p2p/mldonkey-core, and net-p2p/mldonkey-gui. The Makefiles for the -core and -gui ones are pretty short; each just sets a few variables (PKGNAMEPREFIX and PKGNAMESUFFIX are not among them) and then includes the Makefile for the main mldonkey port. I searched mldonkey/Makefile for PKGNAME. It doesn't contain any references (at least not obvious, direct ones) to PKGNAMEPREFIX, but it does contain a couple to PKGNAMESUFFIX: . if !${PORT_OPTIONS:MGUI} PKGNAMESUFFIX= -core (...) . if !${PORT_OPTIONS:MCORE} PKGNAMESUFFIX= -gui Given that the message complains about a duplicate of "mldonkey-core", I am guessing that both mldonkey-core and mldonkey-gui are hitting that ".if !$(PORT_OPTIONS:MGUI)", and therefore both are setting PKGNAMESUFFIX to -core. Unfortunately, due to my lack of knowledge and/or sleep, I haven't been able to figure out where this PORT_OPTIONS:MGUI thing (or, more specifically, the lack thereof) is coming from, but I do know this: One of the things I do in my make.conf is OPTIONS_UNSET+=GUI. I'm guessing that that somehow causes PORT_OPTIONS:MGUI to be false, regardless of whether or not the actual package being analyzed is mldonkey-core or mldonkey-gui.