Atom & Bond labels values are used as the font type and size of atom labels, bond labels such as the "C/T" label, or query property labels of atoms, etc.

Double bond spacing is a gap between two lines/sticks representing a double or triple bond. It is measured in Angstroms.

Wireframe bond thickness is the width of bonds in wireframe mode. It is measured in Angstroms.

Stick diameter is the width of bonds in stick mode in Angstroms.

Ball radius is the size of atom spheres in Ball and Stick draw type, measured in Angstroms.

Look & Feel allows changing the visual appearance of GUI components. The available options are: Metal, Nimbus, CDE/Motif, JGoodies Plastic, JGoodies Plastic XP, and the native Look & Feels (Windows, Windows Classic, Aqua) based on the underlying operating system.

MarvinView Layout sets the default layout to Automatic, Molecule matrix or Spreadsheet.

Show Bond in Hand, when checked, show the current bond type under the mouse cursor like template structures.

Show Lone Pair as Line, when checked, shows lone pairs on the canvas as lines.

Show Charge in Circle, when checked, displays a circle around around each charge symbol.

Circled Charge labels values are used as the font type and size of the circled charge symbols.

Fog effect factor: manual setting of the fading strength. No fog: all regions of the structure is displayed with the same line strength and color. Strong effect: the fading is at its maximum (molecule is only slightly visible at the far end).