I haven't been able to get fink's pymol to work at all with 10.3, and it is also rather out of date now. You might want to check out the OSX native version. cf: http://pymol.sourceforge.net/ I've tried compiling the v. 93 x-windows/tkinter version from source on OS X but haven't had any luck. The native version works great, and warren optimized it with shark.
HTH,
Bill Scott
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