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Well, then there are probably good news from FLTK. The current development version (1.3.0) can be configured to work with cygwin/X11 OOTB:
$ ./configure --enable-cygwin --enable-x11
For the latest stable release (1.1.10) a configure patch to make it work with X11 has been posted by the Cygwin maintainer (Teun Burgers), but didn't make it into the final release. He also supplied the configure/X11 patch for the current development version.
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