If condensation due to high humidity is penetrating at only the interface(s) of your conformal coating and the board, you can increase the adhesion of the conformal coating to the board by using a suitable gas plasma treatment. The increased adhesion may be enough to keep the condensation out. This kind of plasma treatment is done to the entire surface of the board inside a low-pressure plasma system, just before your conformal coating step.
Argon gas is a popular choice for this process, because it does not cause oxidation of the board material. The plasma treatment will activate the surface (increase the surface energy) of the board due to ion and free-radical interaction with the surface of the board, resulting in increased bondability to the conformal coating.
However, if the condensation is actually penetrating the conformal coating itself, you may need to try a different type of conformal coating, one that is inherently less permeable to liquids. The problem with high-density conformal coatings is they’re usually more difficult to bond to the board. As above, this kind of adhesion issue can be solved by using an appropriate gas plasma treatment. Gas plasma treatments are becoming increasingly popular for board manufacturing processes such as these.
You can contact plasma system suppliers to see if they will run samples for you—most will do so at no charge in order to demonstrate the effectiveness of their gas plasma treatments.