It's wonderfully easy!
Within the 3D view of microwave studio what you want to do is select "Lumped Element" on the "Simulation" ribbon. In the dialog box that pops up, specify the RLC (or diode) values/parameters you want, and the x,y,z coordinates of the "terminals".
If you've already drawn the SMD pads of the components you want to insert, you can use the "pick point" tool to select the two end points prior to choosing the lumped element dialog and CST is intelligent enough to conveniently insert the coordinates for you.