without seeing the actual code I can only speculate - but it sounds like the ButtonDownFcn is being removed when you replot, this happens by design when the axes nextplot property is 'replace'.
See the example below on how changing the nextplot to be 'add' alters the behaviour (note you need to clear the axes "cla" when you want to draw a new plot.
function test
f = figure;
a1 = axes ( 'parent', f, 'position', [0 0 0.5 0.5], 'ButtonDownFcn', @redrawA1 );
a2 = axes ( 'parent', f, 'position', [0.5 0.5 0.5 0.5], 'ButtonDownFcn', @redrawA2, 'nextplot', 'add' );
end
function redrawA1 ( obj, event )
disp( 'in callback A1' );
plot ( gca, rand(10), rand(10) );
end
function redrawA2 ( obj, event )
cla ( gca )
disp( 'in callback A2' );
plot ( gca, rand(10), rand(10) );
end
