Flush support is currently in development. Since today, we're developing a means of telling Yapter to flush blocks to the output, before it is done parsing all blocks. On large sites, this is truly a must. To take Yapter to the next level, flush support therefore must be available.
I'm getting help on this of Ivo Koster--many thanks! As of version 1.9, Yapter's development trunk has split off a branch which sole purpose is to add the flush support. Meanwhile, bugfixing and adding other minor features is done in the main trunk.
To get the development trunk for the flush support, do a cvs checkout on the 'flush-branch' tag.