ADDITIONAL SYSTEM INFORMATION :
java -version: openjdk version "14.0.1" 2020-04-14
javac -version: javac 14.0.1
running ubuntu 20.04 as main, replicable on debian 10, not replicable on windows

A DESCRIPTION OF THE PROBLEM :
When utilizing JavaFx on Linux, transparency functionality is simply not there. Building and running on Windows yields a different result.

STEPS TO FOLLOW TO REPRODUCE THE PROBLEM :
Plain JavaFx project using FXML with the following elements for transparency:
        Scene scene = new Scene(root, screenSize.width-100, 50*SCALING_MODIFIER, Color.TRANSPARENT);
        root.setStyle("-fx-background-color: transparent;");
        stage.initStyle(StageStyle.TRANSPARENT);
        stage.setOpacity(1.0);

EXPECTED VERSUS ACTUAL BEHAVIOR :
EXPECTED -
The background to be transparent.
ACTUAL -
The background is not transparent.

FREQUENCY : always