The best way to combat superstition is by replacing ignorance with wisdom and facts. Without hostility one can encourage an understanding of science and the use of critical thinking, that is the best way to discourage superstition. Superstitious mythology usually falls with education. Teaching people that any claim should be supported by objective testable reality is a good approach. Teaching someone to look for the facts instead of believing something on faith is not the same thing as just opposing a religion. A person can (through teaching) give someone the ability to dispel myths through inspection of the facts, and that will give them a perspective on what is reasonable fact based information and what is an unreasonable belief. Once a person has the necessary knowledge and knows how to apply critical thinking to the mystical they usually realize that it has no merit.
Teaching the facts about how the universe and life in that universe evolved is far more important than sitting around arguing about faith. Darwin, after a lifetime of study and thought, wrote the "Origin of the Species" and then presented his theoretical argument to the scientific community and to the public. It was accepted as sound theory because there was plenty of evidence to back it up. Mapping the human genome proved that Darwin was right, every species evolved, they were not created. Believing that everything was created in some mysterious way that nobody could possibly ever understand is not that different from believing that the earth is flat. Mankind evolved over a long period of time from primitive animal ancestors.
In order to know the difference in science and pseudo-science you have to know why something like Intelligent Design or creationism is not science and does not answer anything. One of the claims of evidence for intelligent design is intricate cellular components, because they claim they couldn't have evolved. They say that they can't be broken down into smaller, simpler functional parts. However, research shows the cellular machine (exactly the kind of structure that Intelligent Design say indicates design) were there all along and were acquired and assigned a new function. There is proof that cellular complexity is reducible, and that disputes the claims of Intelligent Design that it is not, because it only requires that existing components be reassigned for a new purpose, with inevitable mutations providing extra ingredients as needed. Google the court case concerning the "flagella" - (Judgment Day: Intelligent Design on Trial). The flagella were an issue in the case in Dover Pennsylvania (used as proof of design); it is the hair-like propellers used by bacteria to move. Their component parts are found throughout cells, performing other tasks.
There is no scientific theory based on creationism or Intelligent Design. There is nothing that does not have an explanation; it is just a matter of continuing to look for the answers. Once people are educated many things they once believed will fall apart under the weight of critical analysis, because that is exactly what happened to Intelligent Design once it underwent critical analysis by the scientific community, and that is why it is widely considered pseudo-science today.
Pseudo-science is anything that has no legitimate theory does not answer anything or make predictions, and cannot be falsified. Most pseudo-science has taken authentic scientific theory and developed rebuttals (called theory) in order to promote creationism. The very fact that creationism is still an issue is just another example of the prevailing problem involved with the exploitation of ignorance.
I think that it is very sad to substitute the wonder and mystery of science for a lot of nonsense because the mysteries of space and other scientific fields are far more fascinating, and what can be learned is far more reliable than beliefs in myths. We all have to be brave enough to decide to go forward and not retreat into the darkness. It does not require any knowledge or critical thinking to believe in unsubstantiated claims written by unknown writers of ancient myths. These areas of study can only tell us why civilizations decided they needed religion, but religion itself does not tell us a thing. It would be far more beneficial to give someone the tools that they need to understand the real world that they live in and they will figure the rest of it out by themselves if they are very smart.