This enhancement has been incorporated in MATLAB 7.5 (R2007b).
To work around this issue in previous MATLAB releases, if you are using MATLAB 7.0 (R14) or later, you can use SUBPLOT instead of PLOTYY with LINKAXES to synchronize the limits of multiple axes. An example code of this method is shown below:
ax(1) = subplot(2,2,1);
plot(rand(1,10)*10,'Parent',ax(1));
ax(2) = subplot(2,2,2);
plot(rand(1,10)*100,'Parent',ax(2));
linkaxes(ax,'x');
For more information, please see the documentation for LINKAXES :
