This did trip me up the first time I took a polar orbit contract. The dots are actually pretty small, and while I did notice them, I thought they were just a weird visual artifact. Only after a few frustrating minutes of tweaking and refining my orbit did I realize the direction mattered and I just needed to flip it. You're never going to be able to make it clear to 100% of the people, but that doesn't automatically mean trying to improve it is wasted effort. I would bet that even a simple change like making the dots slightly larger or replacing them with arrows would greatly reduce the confusion among inexperienced players.