Annoyed by nasal congestion and hyper-salivation during meditation?
I was developing aversion towards it which totally defeats the purpose of Vipassana.


The purpose of Vipassana is to gain insight. Is there any way you can gain insight into the workings of your experience through your newfound aversion? You can observe any experience to gain insight into the truth, but looking into suffering is particularly helpful. Moments of suffering house so much delusion, they are information treasures!

Wishing your physical condition to go away is a manifestation of fundimental aversion. Next time you are meditating, I encourage you to ask yourself these questions. 


What makes up your desire to have your condition go away?
How often is the desire/suffering being felt by you?
What physical and mental sensations occur that show you your desire is absolute/a need?
What part of you is your condition harming?


The beautiful thing about being dissatisfied is that although it is painful, it is an insight jumping in front of your face, ready to occur! 

Best of luck to you and I hope you find what you are looking for!