In opinion, a better replacement for the builtin boxplot is "Violin Plots for plotting multiple distributions (distributionPlot.m)" which does no require any additional toolboxes. Check:
I have found a temporary fix for the exporting as eps problem. When you export, do not "Save As" but instead use "Export Setup". Under "Rendering" in Properties, choose the Resolution as "Screen" (do NOT use Auto). This should keep the magnifying square where it should be.