I've posted a small fix here[1] and probably the sources on the SVN could be updated and committed to avoid the errors.

My system:
$ pd -version
Pd version 0.41-4
compiled 00:27:04 Nov 7 2008

$ uname -a
Linux 2.6.31-9-rt #152-Ubuntu SMP PREEMPT RT Thu Oct 15 05:01:14 UTC 2009 i686 GNU/Linux

$gcc --version
gcc (Ubuntu 4.4.1-4ubuntu9) 4.4.1

[1] https://puredata.info/Members/PedroLopes/flashserverLinuxFix

Best regards,
Pedro Lopes