I need to make a decision for container orchestration , and needed help in finding out limitation in real world scenarios that can occur using docker swarm over kubernetes, if anyone ever faced any such limitation please suggest.
The containers cluster may reach a value of approx 50-100 containers.
Docker swarm is young and there are a lot of features introduced relatively quickly. This however causes more issues and open "serious" bugs. For a production system that should be up 100% that might be an issue. I personally experienced a bug that made it impossible to start new containers because they were assigned an IP that is already taken. This forced me to shut down my swarm (it's a dev system so I didn't mind too much).
I suggest having a look at the most commented swarm bugs/issues in github.