Using version 6.21, I'm seeing a bug with the line marker. The marker is not always reset.
Open two connections and join the same channel on both. Tile the channel windows, use on window to write text and the other to show the bug.
Type text then focus the other window to reset the marker's position, go back to type more text.
You'll see that if nothing comes in front of the area used to display the channel conversation (this does not include the nick list, the editbox, and the window's borders), and if you don't use the scrollbar (which should not be necessary if the line is still visible), the position of the line marker will not be reset.
Expand the "typing" window to overlap the "channel area" of the other (one pixel is enough), and the bug is gone.