Created attachment 260
"Useful information about your system" copied from the Bug Report Form

When I run the following macro, the resulting polygon selection changes position from the initial polygon. I have tried this on tiff and png files. 

makePolygon(479,637,1003,429,937,335,689,444,604,363,643,463,445,537);
run("Draw");
run("Rotate...", "angle=45");
run("Rotate...", "angle=-45");

When I was testing this problem, it also occurred for squares when the x and y coordinate were not the same - however, I updated my version of Fiji, and this no longer occurs. E.g.:
run("Specify...", "width=100 height=100 x=100 y=300");
run("Draw");
run("Rotate...", "angle=45");
run("Rotate...", "angle=-45");

Is the centre of the object the point of rotation?

Thanks,
Linda