How to temporarily hide hydrogen atoms in Molden?
As long as you are not using an ancient version of Molden, this should be no problem. (The oldest one I found in my software archive was Moleden5.1 from January 2014 and it already contains this feature.)

In the Molden control window there is a button with an italic H. This will open a menu with "Excl. All Hydrogens", "Excl. H except H-bond", "(Re)calculate H-bond", "H-bond parameters", and "Opt. H positions". I'll leave it to you to play around with it, below you find a small animation of the first two modes for the base pair GC.



And because it is a little bit too tiny in the gif, here is a crop of the Molden control window.