I have a script to create separate plots and was using the Application Builder to combine the plots in a new layout. However, most of the plots don't appear in the report window of the application builder. The plots that don't appear have a by column, so there are two plots in the new window. The plot that does show up is a single bivariate plot, but it is still embedded in a new window command. I am using JMP 12.0.1 and am not sure if this makes a difference.