The reason I'm using code is because this particular part of the menu is an instanced scene. The layout that I have edited inside that separate scene is setup for a pause menu. I'm modifying the scene before it pops up so it will look good in my main menu.
func _on_OptionsButton_pressed():
$OptionsMenu/Buttons.set_position(Vector2(105,103))
$OptionsMenu/Buttons.set_size(Vector2(959,869))
$OptionsMenu/Buttons.anchor_left = 0.055
$OptionsMenu/Buttons.anchor_top = 0.102
$OptionsMenu/Buttons.anchor_right = 0.554
$OptionsMenu/Buttons.anchor_bottom = 0.902
$OptionsMenu/Buttons.margin_left = 0
$OptionsMenu/Buttons.margin_top = 0
$OptionsMenu/Buttons.margin_right = 0
$OptionsMenu/Buttons.margin_bottom = 0
$OptionsMenu/Buttons.set_exclusive(false)
$OptionsMenu/Buttons/Panel.hide()
$OptionsMenu/VideoOptions.set_position(Vector2(105,103))
$OptionsMenu/VideoOptions.set_size(Vector2(959,869))
$OptionsMenu/VideoOptions.anchor_left = 0.055
$OptionsMenu/VideoOptions.anchor_top = 0.102
$OptionsMenu/VideoOptions.anchor_right = 0.554
$OptionsMenu/VideoOptions.anchor_bottom = 0.902
$OptionsMenu/VideoOptions.margin_left = 0
$OptionsMenu/VideoOptions.margin_top = 0
$OptionsMenu/VideoOptions.margin_right = 0
$OptionsMenu/VideoOptions.margin_bottom = 0
$OptionsMenu/VideoOptions.set_exclusive(false)
$OptionsMenu/VideoOptions/Panel.hide()
$OptionsMenu/AudioOptions.set_position(Vector2(105,103))
$OptionsMenu/AudioOptions.set_size(Vector2(959,869))
$OptionsMenu/AudioOptions.anchor_left = 0.055
$OptionsMenu/AudioOptions.anchor_top = 0.102
$OptionsMenu/AudioOptions.anchor_right = 0.554
$OptionsMenu/AudioOptions.anchor_bottom = 0.902
$OptionsMenu/AudioOptions.margin_left = 0
$OptionsMenu/AudioOptions.margin_top = 0
$OptionsMenu/AudioOptions.margin_right = 0
$OptionsMenu/AudioOptions.margin_bottom = 0
$OptionsMenu/AudioOptions.set_exclusive(false)
$OptionsMenu/AudioOptions/Panel.hide()
$OptionsMenu/Buttons.popup()
Is that a bad way to do this?